Warning: Permanently added '2620:52:3:1:dead:beef:cafe:c114' (ED25519) to the list of known hosts. You can reproduce this build on your computer by running: sudo dnf install copr-rpmbuild /usr/bin/copr-rpmbuild --verbose --drop-resultdir --task-url https://copr.fedorainfracloud.org/backend/get-build-task/6986844-fedora-39-x86_64 --chroot fedora-39-x86_64 Version: 0.70 PID: 6212 Logging PID: 6213 Task: {'appstream': False, 'background': True, 'build_id': 6986844, 'buildroot_pkgs': [], 'chroot': 'fedora-39-x86_64', 'enable_net': False, 'fedora_review': False, 'git_hash': 'cb131446a3ecdb28c60f5cf5989e1837034c5ae7', 'git_repo': 'https://copr-dist-git.fedorainfracloud.org/git/psimovec/openblas-0.3.23:pr:1/seqan', 'isolation': 'default', 'memory_reqs': 2048, 'package_name': 'seqan', 'package_version': '1.4.2-54', 'project_dirname': 'openblas-0.3.23:pr:1', 'project_name': 'openblas-0.3.23', 'project_owner': 'psimovec', 'repo_priority': None, 'repos': [{'baseurl': 'https://download.copr.fedorainfracloud.org/results/psimovec/openblas-0.3.23/fedora-39-x86_64/', 'id': 'copr_base', 'name': 'Copr repository', 'priority': None}, {'baseurl': 'http://kojipkgs.fedoraproject.org/repos/rawhide/latest/$basearch/', 'id': 'http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch', 'name': 'Additional repo http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch'}], 'sandbox': 'psimovec/openblas-0.3.23--https://src.fedoraproject.org/user/jjames', 'source_json': {}, 'source_type': None, 'submitter': 'https://src.fedoraproject.org/user/jjames', 'tags': [], 'task_id': '6986844-fedora-39-x86_64', 'timeout': 18000, 'uses_devel_repo': False, 'with_opts': [], 'without_opts': []} Running: git clone https://copr-dist-git.fedorainfracloud.org/git/psimovec/openblas-0.3.23:pr:1/seqan /var/lib/copr-rpmbuild/workspace/workdir-z_cs92qv/seqan --depth 500 --no-single-branch --recursive cmd: ['git', 'clone', 'https://copr-dist-git.fedorainfracloud.org/git/psimovec/openblas-0.3.23:pr:1/seqan', '/var/lib/copr-rpmbuild/workspace/workdir-z_cs92qv/seqan', '--depth', '500', '--no-single-branch', '--recursive'] cwd: . rc: 0 stdout: stderr: Cloning into '/var/lib/copr-rpmbuild/workspace/workdir-z_cs92qv/seqan'... Running: git checkout cb131446a3ecdb28c60f5cf5989e1837034c5ae7 -- cmd: ['git', 'checkout', 'cb131446a3ecdb28c60f5cf5989e1837034c5ae7', '--'] cwd: /var/lib/copr-rpmbuild/workspace/workdir-z_cs92qv/seqan rc: 0 stdout: stderr: Note: switching to 'cb131446a3ecdb28c60f5cf5989e1837034c5ae7'. You are in 'detached HEAD' state. You can look around, make experimental changes and commit them, and you can discard any commits you make in this state without impacting any branches by switching back to a branch. If you want to create a new branch to retain commits you create, you may do so (now or later) by using -c with the switch command. Example: git switch -c Or undo this operation with: git switch - Turn off this advice by setting config variable advice.detachedHead to false HEAD is now at cb13144 automatic import of seqan Running: copr-distgit-client sources /usr/bin/tail: /var/lib/copr-rpmbuild/main.log: file truncated cmd: ['copr-distgit-client', 'sources'] cwd: /var/lib/copr-rpmbuild/workspace/workdir-z_cs92qv/seqan rc: 0 stdout: stderr: INFO: Reading stdout from command: git rev-parse --abbrev-ref HEAD INFO: Reading stdout from command: git rev-parse HEAD INFO: Reading sources specification file: sources INFO: Downloading seqan-src-1.4.2.tar.gz INFO: Reading stdout from command: curl --help all INFO: Calling: curl -H Pragma: -o seqan-src-1.4.2.tar.gz --location --connect-timeout 60 --retry 3 --retry-delay 10 --remote-time --show-error --fail --retry-all-errors https://copr-dist-git.fedorainfracloud.org/repo/pkgs/psimovec/openblas-0.3.23:pr:1/seqan/seqan-src-1.4.2.tar.gz/md5/e7d2c6cf6474b5186c27ec31bd32738a/seqan-src-1.4.2.tar.gz % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 100 115M 100 115M 0 0 10.2M 0 0:00:11 0:00:11 --:--:-- 8365k INFO: Reading stdout from command: md5sum seqan-src-1.4.2.tar.gz Running (timeout=18000): unbuffer mock --spec /var/lib/copr-rpmbuild/workspace/workdir-z_cs92qv/seqan/seqan.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-z_cs92qv/seqan --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1707147914.209182 -r /var/lib/copr-rpmbuild/results/configs/child.cfg INFO: mock.py version 5.4 starting (python version = 3.11.3, NVR = mock-5.4-1.fc38), args: /usr/libexec/mock/mock --spec /var/lib/copr-rpmbuild/workspace/workdir-z_cs92qv/seqan/seqan.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-z_cs92qv/seqan --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1707147914.209182 -r /var/lib/copr-rpmbuild/results/configs/child.cfg Start(bootstrap): init plugins INFO: tmpfs initialized INFO: selinux enabled INFO: chroot_scan: initialized INFO: compress_logs: initialized Finish(bootstrap): init plugins Start: init plugins INFO: tmpfs initialized INFO: selinux enabled INFO: chroot_scan: initialized INFO: compress_logs: initialized Finish: init plugins INFO: Signal handler active Start: run INFO: Start(/var/lib/copr-rpmbuild/workspace/workdir-z_cs92qv/seqan/seqan.spec) Config(fedora-39-x86_64) Start: clean chroot Finish: clean chroot Mock Version: 5.4 INFO: Mock Version: 5.4 Start(bootstrap): chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-39-x86_64-bootstrap-1707147914.209182/root. INFO: calling preinit hooks INFO: enabled root cache INFO: enabled package manager cache Start(bootstrap): cleaning package manager metadata Finish(bootstrap): cleaning package manager metadata INFO: Guessed host environment type: unknown INFO: Using bootstrap image: registry.fedoraproject.org/fedora:39 INFO: Pulling image: registry.fedoraproject.org/fedora:39 INFO: Copy content of container registry.fedoraproject.org/fedora:39 to /var/lib/mock/fedora-39-x86_64-bootstrap-1707147914.209182/root INFO: Checking that registry.fedoraproject.org/fedora:39 image matches host's architecture INFO: mounting registry.fedoraproject.org/fedora:39 with podman image mount INFO: image registry.fedoraproject.org/fedora:39 as /var/lib/containers/storage/overlay/8ff7ad910417a7b8a49019008335921d2aac0e3304a19ce258deabf431e59801/merged INFO: umounting image registry.fedoraproject.org/fedora:39 (/var/lib/containers/storage/overlay/8ff7ad910417a7b8a49019008335921d2aac0e3304a19ce258deabf431e59801/merged) with podman image umount INFO: Package manager dnf detected and used (fallback) INFO: Bootstrap image not marked ready Start(bootstrap): installing dnf tooling No matches found for the following disable plugin patterns: local, spacewalk, versionlock Copr repository 31 MB/s | 22 MB 00:00 Additional repo http_kojipkgs_fedoraproject_org 16 MB/s | 74 MB 00:04 fedora 4.6 MB/s | 89 MB 00:19 updates 13 MB/s | 32 MB 00:02 Last metadata expiration check: 0:00:04 ago on Mon Feb 5 15:46:27 2024. Package python3-dnf-4.18.1-2.fc39.noarch is already installed. Dependencies resolved. ========================================================================================================================= Package Arch Version Repository Size ========================================================================================================================= Installing: python3-dnf-plugins-core noarch 4.4.4-3.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 302 k Upgrading: dnf noarch 4.18.2-1.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 496 k dnf-data noarch 4.18.2-1.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 39 k python3-dnf noarch 4.18.2-1.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 549 k yum noarch 4.18.2-1.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 37 k Installing dependencies: dbus-libs x86_64 1:1.14.10-3.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 156 k python3-dateutil noarch 1:2.8.2-13.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 345 k python3-dbus x86_64 1.3.2-6.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 145 k python3-distro noarch 1.9.0-3.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 45 k python3-six noarch 1.16.0-14.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 41 k python3-systemd x86_64 235-9.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 100 k Transaction Summary ========================================================================================================================= Install 7 Packages Upgrade 4 Packages Total download size: 2.2 M Downloading Packages: (1/11): dbus-libs-1.14.10-3.fc40.x86_64.rpm 1.6 MB/s | 156 kB 00:00 (2/11): python3-dateutil-2.8.2-13.fc40.noarch.r 3.3 MB/s | 345 kB 00:00 (3/11): python3-dbus-1.3.2-6.fc40.x86_64.rpm 1.2 MB/s | 145 kB 00:00 (4/11): python3-distro-1.9.0-3.fc40.noarch.rpm 2.2 MB/s | 45 kB 00:00 (5/11): python3-dnf-plugins-core-4.4.4-3.fc40.n 10 MB/s | 302 kB 00:00 (6/11): python3-six-1.16.0-14.fc40.noarch.rpm 2.0 MB/s | 41 kB 00:00 (7/11): python3-systemd-235-9.fc40.x86_64.rpm 3.1 MB/s | 100 kB 00:00 (8/11): dnf-data-4.18.2-1.fc40.noarch.rpm 2.2 MB/s | 39 kB 00:00 (9/11): dnf-4.18.2-1.fc40.noarch.rpm 15 MB/s | 496 kB 00:00 (10/11): yum-4.18.2-1.fc40.noarch.rpm 2.1 MB/s | 37 kB 00:00 (11/11): python3-dnf-4.18.2-1.fc40.noarch.rpm 18 MB/s | 549 kB 00:00 -------------------------------------------------------------------------------- Total 12 MB/s | 2.2 MB 00:00 Running transaction check Transaction check succeeded. Running transaction test Transaction test succeeded. Running transaction Preparing : 1/1 Upgrading : dnf-data-4.18.2-1.fc40.noarch 1/15 Upgrading : python3-dnf-4.18.2-1.fc40.noarch 2/15 Upgrading : dnf-4.18.2-1.fc40.noarch 3/15 Running scriptlet: dnf-4.18.2-1.fc40.noarch 3/15 Installing : python3-systemd-235-9.fc40.x86_64 4/15 Installing : python3-six-1.16.0-14.fc40.noarch 5/15 Installing : python3-dateutil-1:2.8.2-13.fc40.noarch 6/15 Installing : python3-distro-1.9.0-3.fc40.noarch 7/15 Installing : dbus-libs-1:1.14.10-3.fc40.x86_64 8/15 Installing : python3-dbus-1.3.2-6.fc40.x86_64 9/15 Installing : python3-dnf-plugins-core-4.4.4-3.fc40.noarch 10/15 Upgrading : yum-4.18.2-1.fc40.noarch 11/15 Cleanup : yum-4.18.1-2.fc39.noarch 12/15 Running scriptlet: dnf-4.18.1-2.fc39.noarch 13/15 Cleanup : dnf-4.18.1-2.fc39.noarch 13/15 Running scriptlet: dnf-4.18.1-2.fc39.noarch 13/15 Cleanup : python3-dnf-4.18.1-2.fc39.noarch 14/15 Cleanup : dnf-data-4.18.1-2.fc39.noarch 15/15 Running scriptlet: dnf-data-4.18.1-2.fc39.noarch 15/15 Verifying : dbus-libs-1:1.14.10-3.fc40.x86_64 1/15 Verifying : python3-dateutil-1:2.8.2-13.fc40.noarch 2/15 Verifying : python3-dbus-1.3.2-6.fc40.x86_64 3/15 Verifying : python3-distro-1.9.0-3.fc40.noarch 4/15 Verifying : python3-dnf-plugins-core-4.4.4-3.fc40.noarch 5/15 Verifying : python3-six-1.16.0-14.fc40.noarch 6/15 Verifying : python3-systemd-235-9.fc40.x86_64 7/15 Verifying : dnf-4.18.2-1.fc40.noarch 8/15 Verifying : dnf-4.18.1-2.fc39.noarch 9/15 Verifying : dnf-data-4.18.2-1.fc40.noarch 10/15 Verifying : dnf-data-4.18.1-2.fc39.noarch 11/15 Verifying : python3-dnf-4.18.2-1.fc40.noarch 12/15 Verifying : python3-dnf-4.18.1-2.fc39.noarch 13/15 Verifying : yum-4.18.2-1.fc40.noarch 14/15 Verifying : yum-4.18.1-2.fc39.noarch 15/15 Upgraded: dnf-4.18.2-1.fc40.noarch dnf-data-4.18.2-1.fc40.noarch python3-dnf-4.18.2-1.fc40.noarch yum-4.18.2-1.fc40.noarch Installed: dbus-libs-1:1.14.10-3.fc40.x86_64 python3-dateutil-1:2.8.2-13.fc40.noarch python3-dbus-1.3.2-6.fc40.x86_64 python3-distro-1.9.0-3.fc40.noarch python3-dnf-plugins-core-4.4.4-3.fc40.noarch python3-six-1.16.0-14.fc40.noarch python3-systemd-235-9.fc40.x86_64 Complete! Finish(bootstrap): installing dnf tooling Start(bootstrap): creating root cache Finish(bootstrap): creating root cache Finish(bootstrap): chroot init Start: chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-39-x86_64-1707147914.209182/root. INFO: calling preinit hooks INFO: enabled root cache INFO: enabled package manager cache Start: cleaning package manager metadata Finish: cleaning package manager metadata INFO: enabled HW Info plugin INFO: Package manager dnf detected and used (direct choice) INFO: Buildroot is handled by package management downloaded with a bootstrap image: rpm-4.19.0-1.fc39.x86_64 rpm-sequoia-1.5.0-1.fc39.x86_64 python3-dnf-4.18.2-1.fc40.noarch python3-dnf-plugins-core-4.4.4-3.fc40.noarch yum-4.18.2-1.fc40.noarch Start: installing minimal buildroot with dnf No matches found for the following disable plugin patterns: local, spacewalk, versionlock Copr repository 60 MB/s | 22 MB 00:00 Additional repo http_kojipkgs_fedoraproject_org 27 MB/s | 74 MB 00:02 fedora 34 MB/s | 89 MB 00:02 updates 30 MB/s | 32 MB 00:01 Last metadata expiration check: 0:00:04 ago on Mon Feb 5 15:47:32 2024. Dependencies resolved. ======================================================================================================================================== Package Arch Version Repository Size ======================================================================================================================================== Installing group/module packages: bash x86_64 5.2.26-2.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 1.8 M bzip2 x86_64 1.0.8-18.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 52 k coreutils x86_64 9.4-6.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 1.1 M cpio x86_64 2.15-1.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 285 k diffutils x86_64 3.10-5.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 397 k fedora-release-common noarch 40-0.29 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 21 k findutils x86_64 1:4.9.0-8.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 482 k gawk x86_64 5.3.0-3.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 1.1 M glibc-minimal-langpack x86_64 2.38.9000-39.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 98 k grep x86_64 3.11-7.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 290 k gzip x86_64 1.13-1.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 164 k info x86_64 7.1-2.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 182 k patch x86_64 2.7.6-24.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 131 k redhat-rpm-config noarch 280-1.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 75 k rpm-build x86_64 4.19.1-4.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 70 k sed x86_64 4.9-1.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 309 k shadow-utils x86_64 2:4.14.0-4.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 1.2 M tar x86_64 2:1.35-3.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 847 k unzip x86_64 6.0-63.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 185 k util-linux x86_64 2.40-0.1.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 1.2 M which x86_64 2.21-41.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 41 k xz x86_64 5.4.6-1.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 531 k Installing dependencies: alternatives x86_64 1.26-3.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 40 k ansible-srpm-macros noarch 1-14.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 21 k audit-libs x86_64 4.0-7.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 120 k authselect x86_64 1.5.0-3.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 144 k authselect-libs x86_64 1.5.0-3.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 234 k basesystem noarch 11-20.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 7.2 k binutils x86_64 2.41-32.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 6.2 M binutils-gold x86_64 2.41-32.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 782 k bzip2-libs x86_64 1.0.8-18.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 41 k ca-certificates noarch 2023.2.62_v7.0.401-6.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 862 k coreutils-common x86_64 9.4-6.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 2.1 M cracklib x86_64 2.9.11-5.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 82 k crypto-policies noarch 20240201-1.git9f501f3.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 69 k curl x86_64 8.6.0-3.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 300 k cyrus-sasl-lib x86_64 2.1.28-19.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 789 k debugedit x86_64 5.0-14.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 79 k dwz x86_64 0.15-5.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 138 k ed x86_64 1.20-2.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 82 k efi-srpm-macros noarch 5-11.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 22 k elfutils x86_64 0.190-6.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 517 k elfutils-debuginfod-client x86_64 0.190-6.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 38 k elfutils-default-yama-scope noarch 0.190-6.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 13 k elfutils-libelf x86_64 0.190-6.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 195 k elfutils-libs x86_64 0.190-6.fc40 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52 M Installed size: 177 M Downloading Packages: (1/152): ansible-srpm-macros-1-14.fc40.noarch.r 242 kB/s | 21 kB 00:00 (2/152): alternatives-1.26-3.fc40.x86_64.rpm 443 kB/s | 40 kB 00:00 (3/152): audit-libs-4.0-7.fc40.x86_64.rpm 3.1 MB/s | 120 kB 00:00 (4/152): authselect-1.5.0-3.fc40.x86_64.rpm 3.6 MB/s | 144 kB 00:00 (5/152): gdb-minimal-14.1-8.fc40.x86_64.rpm 28 MB/s | 4.2 MB 00:00 (6/152): basesystem-11-20.fc40.noarch.rpm 354 kB/s | 7.2 kB 00:00 (7/152): authselect-libs-1.5.0-3.fc40.x86_64.rp 7.9 MB/s | 234 kB 00:00 (8/152): bash-5.2.26-2.fc40.x86_64.rpm 25 MB/s | 1.8 MB 00:00 (9/152): bzip2-1.0.8-18.fc40.x86_64.rpm 2.1 MB/s | 52 kB 00:00 (10/152): binutils-2.41-32.fc40.x86_64.rpm 59 MB/s | 6.2 MB 00:00 (11/152): bzip2-libs-1.0.8-18.fc40.x86_64.rpm 2.0 MB/s | 41 kB 00:00 (12/152): binutils-gold-2.41-32.fc40.x86_64.rpm 6.3 MB/s | 782 kB 00:00 (13/152): ca-certificates-2023.2.62_v7.0.401-6. 31 MB/s | 862 kB 00:00 (14/152): cpio-2.15-1.fc40.x86_64.rpm 9.9 MB/s | 285 kB 00:00 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Running transaction test Transaction test succeeded. 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Installing : gzip-1.13-1.fc40.x86_64 116/152 Installing : cracklib-2.9.11-5.fc40.x86_64 117/152 Installing : libpwquality-1.4.5-9.fc40.x86_64 118/152 Installing : authselect-1.5.0-3.fc40.x86_64 119/152 Installing : libnsl2-2.0.1-1.fc40.x86_64 120/152 Installing : pam-1.6.0-1.fc40.x86_64 121/152 Installing : libssh-0.10.6-4.fc40.x86_64 122/152 Installing : libarchive-3.7.2-3.fc40.x86_64 123/152 Installing : libevent-2.1.12-11.fc40.x86_64 124/152 Installing : openldap-2.6.6-1.fc39.x86_64 125/152 Installing : libcurl-8.6.0-3.fc40.x86_64 126/152 Installing : elfutils-libs-0.190-6.fc40.x86_64 127/152 Installing : elfutils-debuginfod-client-0.190-6.fc40.x86_64 128/152 Installing : binutils-gold-2.41-32.fc40.x86_64 129/152 Running scriptlet: binutils-gold-2.41-32.fc40.x86_64 129/152 Installing : binutils-2.41-32.fc40.x86_64 130/152 Running scriptlet: binutils-2.41-32.fc40.x86_64 130/152 Installing : gdb-minimal-14.1-8.fc40.x86_64 131/152 Installing : elfutils-0.190-6.fc40.x86_64 132/152 Installing : debugedit-5.0-14.fc40.x86_64 133/152 Installing : curl-8.6.0-3.fc40.x86_64 134/152 Installing : rpm-sequoia-1.6.0-2.fc40.x86_64 135/152 Installing : rpm-libs-4.19.1-4.fc40.x86_64 136/152 Running scriptlet: rpm-4.19.1-4.fc40.x86_64 137/152 Installing : rpm-4.19.1-4.fc40.x86_64 137/152 Installing : efi-srpm-macros-5-11.fc40.noarch 138/152 Installing : lua-srpm-macros-1-11.fc40.noarch 139/152 Installing : zig-srpm-macros-1-2.fc40.noarch 140/152 Installing : rpm-build-libs-4.19.1-4.fc40.x86_64 141/152 Installing : ansible-srpm-macros-1-14.fc40.noarch 142/152 Installing : fonts-srpm-macros-1:2.0.5-14.fc40.noarch 143/152 Installing : forge-srpm-macros-0.2.0-3.fc40.noarch 144/152 Installing : go-srpm-macros-3.3.1-3.fc40.noarch 145/152 Installing : python-srpm-macros-3.12-7.fc40.noarch 146/152 Installing : redhat-rpm-config-280-1.fc40.noarch 147/152 Installing : rpm-build-4.19.1-4.fc40.x86_64 148/152 Installing : pyproject-srpm-macros-1.12.0-1.fc40.noarch 149/152 Installing : util-linux-2.40-0.1.fc40.x86_64 150/152 Installing : which-2.21-41.fc40.x86_64 151/152 Installing : info-7.1-2.fc40.x86_64 152/152 Running scriptlet: filesystem-3.18-8.fc40.x86_64 152/152 Running scriptlet: ca-certificates-2023.2.62_v7.0.401-6.fc40.noarch 152/152 Running scriptlet: authselect-libs-1.5.0-3.fc40.x86_64 152/152 Running scriptlet: rpm-4.19.1-4.fc40.x86_64 152/152 Running scriptlet: info-7.1-2.fc40.x86_64 152/152 Installed: alternatives-1.26-3.fc40.x86_64 ansible-srpm-macros-1-14.fc40.noarch audit-libs-4.0-7.fc40.x86_64 authselect-1.5.0-3.fc40.x86_64 authselect-libs-1.5.0-3.fc40.x86_64 basesystem-11-20.fc40.noarch bash-5.2.26-2.fc40.x86_64 binutils-2.41-32.fc40.x86_64 binutils-gold-2.41-32.fc40.x86_64 bzip2-1.0.8-18.fc40.x86_64 bzip2-libs-1.0.8-18.fc40.x86_64 ca-certificates-2023.2.62_v7.0.401-6.fc40.noarch coreutils-9.4-6.fc40.x86_64 coreutils-common-9.4-6.fc40.x86_64 cpio-2.15-1.fc40.x86_64 cracklib-2.9.11-5.fc40.x86_64 crypto-policies-20240201-1.git9f501f3.fc40.noarch curl-8.6.0-3.fc40.x86_64 cyrus-sasl-lib-2.1.28-19.fc40.x86_64 debugedit-5.0-14.fc40.x86_64 diffutils-3.10-5.fc40.x86_64 dwz-0.15-5.fc40.x86_64 ed-1.20-2.fc40.x86_64 efi-srpm-macros-5-11.fc40.noarch elfutils-0.190-6.fc40.x86_64 elfutils-debuginfod-client-0.190-6.fc40.x86_64 elfutils-default-yama-scope-0.190-6.fc40.noarch elfutils-libelf-0.190-6.fc40.x86_64 elfutils-libs-0.190-6.fc40.x86_64 fedora-gpg-keys-40-0.2.noarch fedora-release-40-0.29.noarch fedora-release-common-40-0.29.noarch fedora-release-identity-basic-40-0.29.noarch fedora-repos-40-0.2.noarch fedora-repos-rawhide-40-0.2.noarch file-5.45-3.fc40.x86_64 file-libs-5.45-3.fc40.x86_64 filesystem-3.18-8.fc40.x86_64 findutils-1:4.9.0-8.fc40.x86_64 fonts-srpm-macros-1:2.0.5-14.fc40.noarch forge-srpm-macros-0.2.0-3.fc40.noarch fpc-srpm-macros-1.3-12.fc40.noarch gawk-5.3.0-3.fc40.x86_64 gdb-minimal-14.1-8.fc40.x86_64 gdbm-1:1.23-6.fc40.x86_64 gdbm-libs-1:1.23-6.fc40.x86_64 ghc-srpm-macros-1.6.1-5.fc40.noarch glibc-2.38.9000-39.fc40.x86_64 glibc-common-2.38.9000-39.fc40.x86_64 glibc-gconv-extra-2.38.9000-39.fc40.x86_64 glibc-minimal-langpack-2.38.9000-39.fc40.x86_64 gmp-1:6.2.1-8.fc40.x86_64 gnat-srpm-macros-6-5.fc40.noarch go-srpm-macros-3.3.1-3.fc40.noarch grep-3.11-7.fc40.x86_64 gzip-1.13-1.fc40.x86_64 info-7.1-2.fc40.x86_64 jansson-2.13.1-9.fc40.x86_64 kernel-srpm-macros-1.0-22.fc40.noarch keyutils-libs-1.6.3-3.fc40.x86_64 krb5-libs-1.21.2-5.fc40.x86_64 libacl-2.3.2-1.fc40.x86_64 libarchive-3.7.2-3.fc40.x86_64 libattr-2.5.2-3.fc40.x86_64 libblkid-2.40-0.1.fc40.x86_64 libbrotli-1.1.0-3.fc40.x86_64 libcap-2.69-3.fc40.x86_64 libcap-ng-0.8.4-4.fc40.x86_64 libcom_err-1.47.0-4.fc40.x86_64 libcurl-8.6.0-3.fc40.x86_64 libeconf-0.5.2-3.fc40.x86_64 libevent-2.1.12-11.fc40.x86_64 libfdisk-2.40-0.1.fc40.x86_64 libffi-3.4.4-7.fc40.x86_64 libgcc-14.0.1-0.4.fc40.x86_64 libgomp-14.0.1-0.4.fc40.x86_64 libidn2-2.3.7-1.fc40.x86_64 libmount-2.40-0.1.fc40.x86_64 libnghttp2-1.59.0-2.fc40.x86_64 libnsl2-2.0.1-1.fc40.x86_64 libpkgconf-1.9.5-4.fc40.x86_64 libpsl-0.21.5-3.fc40.x86_64 libpwquality-1.4.5-9.fc40.x86_64 libselinux-3.6-4.fc40.x86_64 libsemanage-3.6-3.fc40.x86_64 libsepol-3.6-3.fc40.x86_64 libsmartcols-2.40-0.1.fc40.x86_64 libssh-0.10.6-4.fc40.x86_64 libssh-config-0.10.6-4.fc40.noarch libstdc++-14.0.1-0.4.fc40.x86_64 libtasn1-4.19.0-6.fc40.x86_64 libtirpc-1.3.4-1.rc2.fc40.2.x86_64 libunistring-1.1-7.fc40.x86_64 libutempter-1.2.1-13.fc40.x86_64 libuuid-2.40-0.1.fc40.x86_64 libverto-0.3.2-8.fc40.x86_64 libxcrypt-4.4.36-5.fc40.x86_64 libxml2-2.12.5-1.fc40.x86_64 libzstd-1.5.5-5.fc40.x86_64 lua-libs-5.4.6-5.fc40.x86_64 lua-srpm-macros-1-11.fc40.noarch lz4-libs-1.9.4-6.fc40.x86_64 mpfr-4.2.1-3.fc40.x86_64 ncurses-base-6.4-12.20240127.fc40.noarch ncurses-libs-6.4-12.20240127.fc40.x86_64 ocaml-srpm-macros-9-3.fc40.noarch openblas-srpm-macros-2-16.fc40.noarch openldap-2.6.6-1.fc39.x86_64 openssl-libs-1:3.1.4-4.fc40.x86_64 p11-kit-0.25.3-4.fc40.x86_64 p11-kit-trust-0.25.3-4.fc40.x86_64 package-notes-srpm-macros-0.5-11.fc40.noarch pam-1.6.0-1.fc40.x86_64 pam-libs-1.6.0-1.fc40.x86_64 patch-2.7.6-24.fc40.x86_64 pcre2-10.42-2.fc40.2.x86_64 pcre2-syntax-10.42-2.fc40.2.noarch perl-srpm-macros-1-53.fc40.noarch pkgconf-1.9.5-4.fc40.x86_64 pkgconf-m4-1.9.5-4.fc40.noarch pkgconf-pkg-config-1.9.5-4.fc40.x86_64 popt-1.19-6.fc40.x86_64 publicsuffix-list-dafsa-20240107-3.fc40.noarch pyproject-srpm-macros-1.12.0-1.fc40.noarch python-srpm-macros-3.12-7.fc40.noarch qt5-srpm-macros-5.15.12-3.fc40.noarch qt6-srpm-macros-6.6.1-5.fc40.noarch readline-8.2-8.fc40.x86_64 redhat-rpm-config-280-1.fc40.noarch rpm-4.19.1-4.fc40.x86_64 rpm-build-4.19.1-4.fc40.x86_64 rpm-build-libs-4.19.1-4.fc40.x86_64 rpm-libs-4.19.1-4.fc40.x86_64 rpm-sequoia-1.6.0-2.fc40.x86_64 rust-srpm-macros-25.2-4.fc40.noarch sed-4.9-1.fc40.x86_64 setup-2.14.5-2.fc40.noarch shadow-utils-2:4.14.0-4.fc40.x86_64 sqlite-libs-3.45.1-2.fc40.x86_64 systemd-libs-255.3-1.fc40.x86_64 tar-2:1.35-3.fc40.x86_64 unzip-6.0-63.fc40.x86_64 util-linux-2.40-0.1.fc40.x86_64 util-linux-core-2.40-0.1.fc40.x86_64 which-2.21-41.fc40.x86_64 xxhash-libs-0.8.2-2.fc40.x86_64 xz-5.4.6-1.fc40.x86_64 xz-libs-5.4.6-1.fc40.x86_64 zig-srpm-macros-1-2.fc40.noarch zip-3.0-40.fc40.x86_64 zlib-ng-compat-2.1.6-2.fc40.x86_64 zstd-1.5.5-5.fc40.x86_64 Complete! Finish: installing minimal buildroot with dnf Start: creating root cache Finish: creating root cache Finish: chroot init INFO: Installed packages: INFO: alternatives-1.26-3.fc40.x86_64 ansible-srpm-macros-1-14.fc40.noarch audit-libs-4.0-7.fc40.x86_64 authselect-1.5.0-3.fc40.x86_64 authselect-libs-1.5.0-3.fc40.x86_64 basesystem-11-20.fc40.noarch bash-5.2.26-2.fc40.x86_64 binutils-2.41-32.fc40.x86_64 binutils-gold-2.41-32.fc40.x86_64 bzip2-1.0.8-18.fc40.x86_64 bzip2-libs-1.0.8-18.fc40.x86_64 ca-certificates-2023.2.62_v7.0.401-6.fc40.noarch coreutils-9.4-6.fc40.x86_64 coreutils-common-9.4-6.fc40.x86_64 cpio-2.15-1.fc40.x86_64 cracklib-2.9.11-5.fc40.x86_64 crypto-policies-20240201-1.git9f501f3.fc40.noarch curl-8.6.0-3.fc40.x86_64 cyrus-sasl-lib-2.1.28-19.fc40.x86_64 debugedit-5.0-14.fc40.x86_64 diffutils-3.10-5.fc40.x86_64 dwz-0.15-5.fc40.x86_64 ed-1.20-2.fc40.x86_64 efi-srpm-macros-5-11.fc40.noarch elfutils-0.190-6.fc40.x86_64 elfutils-debuginfod-client-0.190-6.fc40.x86_64 elfutils-default-yama-scope-0.190-6.fc40.noarch elfutils-libelf-0.190-6.fc40.x86_64 elfutils-libs-0.190-6.fc40.x86_64 fedora-gpg-keys-40-0.2.noarch fedora-release-40-0.29.noarch fedora-release-common-40-0.29.noarch fedora-release-identity-basic-40-0.29.noarch fedora-repos-40-0.2.noarch fedora-repos-rawhide-40-0.2.noarch file-5.45-3.fc40.x86_64 file-libs-5.45-3.fc40.x86_64 filesystem-3.18-8.fc40.x86_64 findutils-4.9.0-8.fc40.x86_64 fonts-srpm-macros-2.0.5-14.fc40.noarch forge-srpm-macros-0.2.0-3.fc40.noarch fpc-srpm-macros-1.3-12.fc40.noarch gawk-5.3.0-3.fc40.x86_64 gdb-minimal-14.1-8.fc40.x86_64 gdbm-1.23-6.fc40.x86_64 gdbm-libs-1.23-6.fc40.x86_64 ghc-srpm-macros-1.6.1-5.fc40.noarch glibc-2.38.9000-39.fc40.x86_64 glibc-common-2.38.9000-39.fc40.x86_64 glibc-gconv-extra-2.38.9000-39.fc40.x86_64 glibc-minimal-langpack-2.38.9000-39.fc40.x86_64 gmp-6.2.1-8.fc40.x86_64 gnat-srpm-macros-6-5.fc40.noarch go-srpm-macros-3.3.1-3.fc40.noarch grep-3.11-7.fc40.x86_64 gzip-1.13-1.fc40.x86_64 info-7.1-2.fc40.x86_64 jansson-2.13.1-9.fc40.x86_64 kernel-srpm-macros-1.0-22.fc40.noarch keyutils-libs-1.6.3-3.fc40.x86_64 krb5-libs-1.21.2-5.fc40.x86_64 libacl-2.3.2-1.fc40.x86_64 libarchive-3.7.2-3.fc40.x86_64 libattr-2.5.2-3.fc40.x86_64 libblkid-2.40-0.1.fc40.x86_64 libbrotli-1.1.0-3.fc40.x86_64 libcap-2.69-3.fc40.x86_64 libcap-ng-0.8.4-4.fc40.x86_64 libcom_err-1.47.0-4.fc40.x86_64 libcurl-8.6.0-3.fc40.x86_64 libeconf-0.5.2-3.fc40.x86_64 libevent-2.1.12-11.fc40.x86_64 libfdisk-2.40-0.1.fc40.x86_64 libffi-3.4.4-7.fc40.x86_64 libgcc-14.0.1-0.4.fc40.x86_64 libgomp-14.0.1-0.4.fc40.x86_64 libidn2-2.3.7-1.fc40.x86_64 libmount-2.40-0.1.fc40.x86_64 libnghttp2-1.59.0-2.fc40.x86_64 libnsl2-2.0.1-1.fc40.x86_64 libpkgconf-1.9.5-4.fc40.x86_64 libpsl-0.21.5-3.fc40.x86_64 libpwquality-1.4.5-9.fc40.x86_64 libselinux-3.6-4.fc40.x86_64 libsemanage-3.6-3.fc40.x86_64 libsepol-3.6-3.fc40.x86_64 libsmartcols-2.40-0.1.fc40.x86_64 libssh-0.10.6-4.fc40.x86_64 libssh-config-0.10.6-4.fc40.noarch libstdc++-14.0.1-0.4.fc40.x86_64 libtasn1-4.19.0-6.fc40.x86_64 libtirpc-1.3.4-1.rc2.fc40.2.x86_64 libunistring-1.1-7.fc40.x86_64 libutempter-1.2.1-13.fc40.x86_64 libuuid-2.40-0.1.fc40.x86_64 libverto-0.3.2-8.fc40.x86_64 libxcrypt-4.4.36-5.fc40.x86_64 libxml2-2.12.5-1.fc40.x86_64 libzstd-1.5.5-5.fc40.x86_64 lua-libs-5.4.6-5.fc40.x86_64 lua-srpm-macros-1-11.fc40.noarch lz4-libs-1.9.4-6.fc40.x86_64 mpfr-4.2.1-3.fc40.x86_64 ncurses-base-6.4-12.20240127.fc40.noarch ncurses-libs-6.4-12.20240127.fc40.x86_64 ocaml-srpm-macros-9-3.fc40.noarch openblas-srpm-macros-2-16.fc40.noarch openldap-2.6.6-1.fc39.x86_64 openssl-libs-3.1.4-4.fc40.x86_64 p11-kit-0.25.3-4.fc40.x86_64 p11-kit-trust-0.25.3-4.fc40.x86_64 package-notes-srpm-macros-0.5-11.fc40.noarch pam-1.6.0-1.fc40.x86_64 pam-libs-1.6.0-1.fc40.x86_64 patch-2.7.6-24.fc40.x86_64 pcre2-10.42-2.fc40.2.x86_64 pcre2-syntax-10.42-2.fc40.2.noarch perl-srpm-macros-1-53.fc40.noarch pkgconf-1.9.5-4.fc40.x86_64 pkgconf-m4-1.9.5-4.fc40.noarch pkgconf-pkg-config-1.9.5-4.fc40.x86_64 popt-1.19-6.fc40.x86_64 publicsuffix-list-dafsa-20240107-3.fc40.noarch pyproject-srpm-macros-1.12.0-1.fc40.noarch python-srpm-macros-3.12-7.fc40.noarch qt5-srpm-macros-5.15.12-3.fc40.noarch qt6-srpm-macros-6.6.1-5.fc40.noarch readline-8.2-8.fc40.x86_64 redhat-rpm-config-280-1.fc40.noarch rpm-4.19.1-4.fc40.x86_64 rpm-build-4.19.1-4.fc40.x86_64 rpm-build-libs-4.19.1-4.fc40.x86_64 rpm-libs-4.19.1-4.fc40.x86_64 rpm-sequoia-1.6.0-2.fc40.x86_64 rust-srpm-macros-25.2-4.fc40.noarch sed-4.9-1.fc40.x86_64 setup-2.14.5-2.fc40.noarch shadow-utils-4.14.0-4.fc40.x86_64 sqlite-libs-3.45.1-2.fc40.x86_64 systemd-libs-255.3-1.fc40.x86_64 tar-1.35-3.fc40.x86_64 unzip-6.0-63.fc40.x86_64 util-linux-2.40-0.1.fc40.x86_64 util-linux-core-2.40-0.1.fc40.x86_64 which-2.21-41.fc40.x86_64 xxhash-libs-0.8.2-2.fc40.x86_64 xz-5.4.6-1.fc40.x86_64 xz-libs-5.4.6-1.fc40.x86_64 zig-srpm-macros-1-2.fc40.noarch zip-3.0-40.fc40.x86_64 zlib-ng-compat-2.1.6-2.fc40.x86_64 zstd-1.5.5-5.fc40.x86_64 Start: buildsrpm Start: rpmbuild -bs Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1706659200 Wrote: /builddir/build/SRPMS/seqan-1.4.2-54.fc40.src.rpm Finish: rpmbuild -bs INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan INFO: /var/lib/mock/fedora-39-x86_64-1707147914.209182/root/var/log/dnf.rpm.log /var/lib/mock/fedora-39-x86_64-1707147914.209182/root/var/log/dnf.librepo.log /var/lib/mock/fedora-39-x86_64-1707147914.209182/root/var/log/dnf.log Finish: buildsrpm INFO: Done(/var/lib/copr-rpmbuild/workspace/workdir-z_cs92qv/seqan/seqan.spec) Config(child) 2 minutes 45 seconds INFO: Results and/or logs in: /var/lib/copr-rpmbuild/results INFO: Cleaning up build root ('cleanup_on_success=True') Start: clean chroot INFO: unmounting tmpfs. Finish: clean chroot INFO: Start(/var/lib/copr-rpmbuild/results/seqan-1.4.2-54.fc40.src.rpm) Config(fedora-39-x86_64) Start(bootstrap): chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-39-x86_64-bootstrap-1707147914.209182/root. INFO: reusing tmpfs at /var/lib/mock/fedora-39-x86_64-bootstrap-1707147914.209182/root. INFO: calling preinit hooks INFO: enabled root cache INFO: enabled package manager cache Start(bootstrap): cleaning package manager metadata Finish(bootstrap): cleaning package manager metadata Finish(bootstrap): chroot init Start: chroot init INFO: mounting tmpfs at /var/lib/mock/fedora-39-x86_64-1707147914.209182/root. INFO: calling preinit hooks INFO: enabled root cache Start: unpacking root cache Finish: unpacking root cache INFO: enabled package manager cache Start: cleaning package manager metadata Finish: cleaning package manager metadata INFO: enabled HW Info plugin INFO: Buildroot is handled by package management downloaded with a bootstrap image: rpm-4.19.0-1.fc39.x86_64 rpm-sequoia-1.5.0-1.fc39.x86_64 python3-dnf-4.18.2-1.fc40.noarch python3-dnf-plugins-core-4.4.4-3.fc40.noarch yum-4.18.2-1.fc40.noarch Finish: chroot init Start: build phase for seqan-1.4.2-54.fc40.src.rpm Start: build setup for seqan-1.4.2-54.fc40.src.rpm Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1706659200 Wrote: /builddir/build/SRPMS/seqan-1.4.2-54.fc40.src.rpm No matches found for the following disable plugin patterns: local, spacewalk, versionlock Copr repository 19 kB/s | 1.5 kB 00:00 Additional repo http_kojipkgs_fedoraproject_org 38 kB/s | 3.8 kB 00:00 fedora 828 kB/s | 24 kB 00:00 updates 981 kB/s | 22 kB 00:00 Dependencies resolved. ============================================================================================================================================ Package Arch Version Repository Size ============================================================================================================================================ Installing: boost-devel x86_64 1.83.0-3.fc40 copr_base 12 M bzip2-devel x86_64 1.0.8-18.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 214 k cmake x86_64 3.28.2-1.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 9.7 M coin-or-lemon-devel x86_64 1.3.1-29.fc40 copr_base 287 k gcc x86_64 14.0.1-0.4.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 37 M gcc-c++ x86_64 14.0.1-0.4.fc40 http_kojipkgs_fedoraproject_org_repos_rawhide_latest_basearch 14 M java-1.8.0-openjdk-devel x86_64 1:1.8.0.402.b06-1.fc40 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boost-container-1.83.0-3.fc40.x86_64.r 1.5 MB/s | 41 kB 00:00 (8/286): boost-contract-1.83.0-3.fc40.x86_64.rp 1.4 MB/s | 47 kB 00:00 (9/286): boost-coroutine-1.83.0-3.fc40.x86_64.r 964 kB/s | 21 kB 00:00 (10/286): boost-date-time-1.83.0-3.fc40.x86_64. 691 kB/s | 16 kB 00:00 (11/286): boost-fiber-1.83.0-3.fc40.x86_64.rpm 2.8 MB/s | 43 kB 00:00 (12/286): boost-filesystem-1.83.0-3.fc40.x86_64 863 kB/s | 70 kB 00:00 (13/286): boost-graph-1.83.0-3.fc40.x86_64.rpm 1.2 MB/s | 153 kB 00:00 (14/286): boost-devel-1.83.0-3.fc40.x86_64.rpm 69 MB/s | 12 MB 00:00 (15/286): boost-iostreams-1.83.0-3.fc40.x86_64. 564 kB/s | 42 kB 00:00 (16/286): boost-json-1.83.0-3.fc40.x86_64.rpm 4.7 MB/s | 145 kB 00:00 (17/286): boost-log-1.83.0-3.fc40.x86_64.rpm 17 MB/s | 492 kB 00:00 (18/286): boost-math-1.83.0-3.fc40.x86_64.rpm 6.3 MB/s | 216 kB 00:00 (19/286): boost-nowide-1.83.0-3.fc40.x86_64.rpm 965 kB/s | 21 kB 00:00 (20/286): boost-numpy3-1.83.0-3.fc40.x86_64.rpm 1.7 MB/s | 30 kB 00:00 (21/286): 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Running transaction test Transaction test succeeded. Running transaction Running scriptlet: copy-jdk-configs-4.1-5.fc40.noarch 1/1 Running scriptlet: java-17-openjdk-headless-1:17.0.10.0.7-1.fc40.x86_64 1/1 Running scriptlet: java-1.8.0-openjdk-headless-1:1.8.0.402.b06-1.fc40.x 1/1 Preparing : 1/1 Installing : xorg-x11-proto-devel-2023.2-4.fc40.noarch 1/286 Installing : javapackages-filesystem-6.2.0-8.fc40.noarch 2/286 Installing : boost-system-1.83.0-3.fc40.x86_64 3/286 Installing : libicu-74.2-1.fc40.x86_64 4/286 Installing : boost-chrono-1.83.0-3.fc40.x86_64 5/286 Installing : cmake-filesystem-3.28.2-1.fc40.x86_64 6/286 Installing : boost-thread-1.83.0-3.fc40.x86_64 7/286 Installing : nspr-4.35.0-20.fc40.x86_64 8/286 Installing : libpng-2:1.6.40-3.fc40.x86_64 9/286 Installing : libglvnd-1:1.7.0-4.fc40.x86_64 10/286 Installing : libICE-1.1.1-3.fc40.x86_64 11/286 Installing : expat-2.5.0-5.fc40.x86_64 12/286 Installing : libSM-1.2.4-3.fc40.x86_64 13/286 Installing : nss-util-3.97.0-1.fc40.x86_64 14/286 Installing : 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boost-atomic-1.83.0-3.fc40.x86_64 boost-chrono-1.83.0-3.fc40.x86_64 boost-container-1.83.0-3.fc40.x86_64 boost-context-1.83.0-3.fc40.x86_64 boost-contract-1.83.0-3.fc40.x86_64 boost-coroutine-1.83.0-3.fc40.x86_64 boost-date-time-1.83.0-3.fc40.x86_64 boost-devel-1.83.0-3.fc40.x86_64 boost-fiber-1.83.0-3.fc40.x86_64 boost-filesystem-1.83.0-3.fc40.x86_64 boost-graph-1.83.0-3.fc40.x86_64 boost-iostreams-1.83.0-3.fc40.x86_64 boost-json-1.83.0-3.fc40.x86_64 boost-locale-1.83.0-3.fc40.x86_64 boost-log-1.83.0-3.fc40.x86_64 boost-math-1.83.0-3.fc40.x86_64 boost-nowide-1.83.0-3.fc40.x86_64 boost-numpy3-1.83.0-3.fc40.x86_64 boost-program-options-1.83.0-3.fc40.x86_64 boost-python3-1.83.0-3.fc40.x86_64 boost-random-1.83.0-3.fc40.x86_64 boost-regex-1.83.0-3.fc40.x86_64 boost-serialization-1.83.0-3.fc40.x86_64 boost-stacktrace-1.83.0-3.fc40.x86_64 boost-system-1.83.0-3.fc40.x86_64 boost-test-1.83.0-3.fc40.x86_64 boost-thread-1.83.0-3.fc40.x86_64 boost-timer-1.83.0-3.fc40.x86_64 boost-type_erasure-1.83.0-3.fc40.x86_64 boost-wave-1.83.0-3.fc40.x86_64 brotli-1.1.0-3.fc40.x86_64 brotli-devel-1.1.0-3.fc40.x86_64 byte-buddy-1.14.2-6.fc40.noarch byte-buddy-agent-1.14.2-6.fc40.noarch bzip2-devel-1.0.8-18.fc40.x86_64 cairo-1.18.0-3.fc40.x86_64 cliquer-libs-1.22-8.fc40.x86_64 cmake-3.28.2-1.fc40.x86_64 cmake-data-3.28.2-1.fc40.noarch cmake-filesystem-3.28.2-1.fc40.x86_64 cmake-rpm-macros-3.28.2-1.fc40.noarch coin-or-Cbc-2.10.5-16.fc40.x86_64 coin-or-Cgl-0.60.3-12.fc40.x86_64 coin-or-Clp-1.17.6-18.fc40.x86_64 coin-or-CoinUtils-2.11.4-12.fc40.x86_64 coin-or-Osi-0.108.6-11.fc40.x86_64 coin-or-lemon-1.3.1-29.fc40.x86_64 coin-or-lemon-devel-1.3.1-29.fc40.x86_64 copy-jdk-configs-4.1-5.fc40.noarch cpp-14.0.1-0.4.fc40.x86_64 crypto-policies-scripts-20240201-1.git9f501f3.fc40.noarch cups-libs-1:2.4.7-9.fc40.x86_64 dbus-libs-1:1.14.10-3.fc40.x86_64 default-fonts-core-sans-4.0-11.fc40.noarch double-conversion-3.3.0-3.fc40.x86_64 duktape-2.7.0-7.fc40.x86_64 emacs-filesystem-1:29.2-3.fc40.noarch expat-2.5.0-5.fc40.x86_64 flexiblas-3.4.1-3.fc40.x86_64 flexiblas-netlib-3.4.1-3.fc40.x86_64 flexiblas-openblas-openmp-3.4.1-3.fc40.x86_64 fontconfig-2.15.0-3.fc40.x86_64 fontconfig-devel-2.15.0-3.fc40.x86_64 fonts-filesystem-1:2.0.5-14.fc40.noarch freetype-2.13.2-4.fc40.x86_64 freetype-devel-2.13.2-4.fc40.x86_64 gc-8.2.2-6.fc40.x86_64 gcc-14.0.1-0.4.fc40.x86_64 gcc-c++-14.0.1-0.4.fc40.x86_64 gcc-plugin-annobin-14.0.1-0.4.fc40.x86_64 gecode-6.2.0-13.fc39.x86_64 gettext-0.22-4.fc40.x86_64 gettext-envsubst-0.22-4.fc40.x86_64 gettext-libs-0.22-4.fc40.x86_64 gettext-runtime-0.22-4.fc40.x86_64 gl-manpages-1.1-31.20190306.fc40.noarch glib2-2.79.1-1.fc40.x86_64 glib2-devel-2.79.1-1.fc40.x86_64 glibc-devel-2.38.9000-39.fc40.x86_64 glibc-headers-x86-2.38.9000-39.fc40.noarch glpk-5.0-11.fc40.x86_64 glx-utils-9.0.0-6.fc40.x86_64 gnutls-3.8.3-2.fc40.x86_64 google-noto-fonts-common-20240101-1.fc40.noarch google-noto-sans-vf-fonts-20240101-1.fc40.noarch graphite2-1.3.14-15.fc40.x86_64 graphite2-devel-1.3.14-15.fc40.x86_64 gsl-2.7.1-7.fc40.x86_64 guile30-3.0.7-12.fc40.x86_64 hamcrest-2.2-14.fc40.noarch harfbuzz-8.3.0-5.fc40.x86_64 harfbuzz-devel-8.3.0-5.fc40.x86_64 harfbuzz-icu-8.3.0-5.fc40.x86_64 hwdata-0.378-3.fc40.noarch jacop-4.9.0-4.fc40.noarch java-1.8.0-openjdk-1:1.8.0.402.b06-1.fc40.x86_64 java-1.8.0-openjdk-devel-1:1.8.0.402.b06-1.fc40.x86_64 java-1.8.0-openjdk-headless-1:1.8.0.402.b06-1.fc40.x86_64 java-17-openjdk-headless-1:17.0.10.0.7-1.fc40.x86_64 javapackages-filesystem-6.2.0-8.fc40.noarch javapackages-tools-6.2.0-8.fc40.noarch jbigkit-libs-2.1-29.fc40.x86_64 jsoncpp-1.9.5-7.fc40.x86_64 junit-1:4.13.2-4.fc40.noarch kernel-headers-6.8.0-0.rc3.26.fc40.x86_64 lcms2-2.16-3.fc40.x86_64 libICE-1.1.1-3.fc40.x86_64 libICE-devel-1.1.1-3.fc40.x86_64 libSM-1.2.4-3.fc40.x86_64 libSM-devel-1.2.4-3.fc40.x86_64 libX11-1.8.7-3.fc40.x86_64 libX11-common-1.8.7-3.fc40.noarch libX11-devel-1.8.7-3.fc40.x86_64 libX11-xcb-1.8.7-3.fc40.x86_64 libXau-1.0.11-6.fc40.x86_64 libXau-devel-1.0.11-6.fc40.x86_64 libXcomposite-0.4.6-3.fc40.x86_64 libXcursor-1.2.1-7.fc40.x86_64 libXcursor-devel-1.2.1-7.fc40.x86_64 libXext-1.3.6-1.fc40.x86_64 libXext-devel-1.3.6-1.fc40.x86_64 libXfixes-6.0.1-3.fc40.x86_64 libXfixes-devel-6.0.1-3.fc40.x86_64 libXft-2.3.8-6.fc40.x86_64 libXft-devel-2.3.8-6.fc40.x86_64 libXi-1.8.1-5.fc40.x86_64 libXi-devel-1.8.1-5.fc40.x86_64 libXinerama-1.1.5-6.fc40.x86_64 libXinerama-devel-1.1.5-6.fc40.x86_64 libXrandr-1.5.4-3.fc40.x86_64 libXrandr-devel-1.5.4-3.fc40.x86_64 libXrender-0.9.11-6.fc40.x86_64 libXrender-devel-0.9.11-6.fc40.x86_64 libXt-1.3.0-3.fc40.x86_64 libXt-devel-1.3.0-3.fc40.x86_64 libXtst-1.2.4-6.fc40.x86_64 libXv-1.0.12-3.fc40.x86_64 libXv-devel-1.0.12-3.fc40.x86_64 libXxf86vm-1.1.5-6.fc40.x86_64 libb2-0.98.1-11.fc40.x86_64 libblkid-devel-2.40-0.1.fc40.x86_64 libdrm-2.4.120-3.fc40.x86_64 libedit-3.1-50.20230828cvs.fc40.x86_64 libedit-devel-3.1-50.20230828cvs.fc40.x86_64 libevdev-1.13.1-4.fc40.x86_64 libffi-devel-3.4.4-7.fc40.x86_64 libfontenc-1.1.7-3.fc40.x86_64 libgfortran-14.0.1-0.4.fc40.x86_64 libglvnd-1:1.7.0-4.fc40.x86_64 libglvnd-core-devel-1:1.7.0-4.fc40.x86_64 libglvnd-devel-1:1.7.0-4.fc40.x86_64 libglvnd-egl-1:1.7.0-4.fc40.x86_64 libglvnd-gles-1:1.7.0-4.fc40.x86_64 libglvnd-glx-1:1.7.0-4.fc40.x86_64 libglvnd-opengl-1:1.7.0-4.fc40.x86_64 libgudev-238-5.fc40.x86_64 libicu-74.2-1.fc40.x86_64 libicu-devel-74.2-1.fc40.x86_64 libinput-1.25.0-3.fc40.x86_64 libjpeg-turbo-2.1.4-6.fc40.x86_64 liblerc-4.0.0-6.fc40.x86_64 libmng-2.0.3-21.fc40.x86_64 libmount-devel-2.40-0.1.fc40.x86_64 libmpc-1.3.1-5.fc40.x86_64 libnauty-2.8.8-3.fc40.x86_64 libpciaccess-0.16-12.fc40.x86_64 libpng-2:1.6.40-3.fc40.x86_64 libpng-devel-2:1.6.40-3.fc40.x86_64 libproxy-0.5.3-5.fc40.x86_64 libquadmath-14.0.1-0.4.fc40.x86_64 libquadmath-devel-14.0.1-0.4.fc40.x86_64 libselinux-devel-3.6-4.fc40.x86_64 libsepol-devel-3.6-3.fc40.x86_64 libstdc++-devel-14.0.1-0.4.fc40.x86_64 libstdc++-static-14.0.1-0.4.fc40.x86_64 libtiff-4.6.0-2.fc40.x86_64 libtool-ltdl-2.4.7-10.fc40.x86_64 libuuid-devel-2.40-0.1.fc40.x86_64 libuv-1:1.47.0-6.fc40.x86_64 libwacom-2.9.0-3.fc40.x86_64 libwacom-data-2.9.0-3.fc40.noarch libwayland-client-1.22.0-3.fc40.x86_64 libwayland-server-1.22.0-3.fc40.x86_64 libwebp-1.3.2-4.fc40.x86_64 libxcb-1.16-4.fc40.x86_64 libxcb-devel-1.16-4.fc40.x86_64 libxcrypt-devel-4.4.36-5.fc40.x86_64 libxkbcommon-1.6.0-2.fc40.x86_64 libxkbcommon-x11-1.6.0-2.fc40.x86_64 libxml2-devel-2.12.5-1.fc40.x86_64 libxshmfence-1.3.2-3.fc40.x86_64 lksctp-tools-1.0.19-6.fc40.x86_64 llvm-17.0.6-6.fc40.x86_64 llvm-devel-17.0.6-6.fc40.x86_64 llvm-googletest-17.0.6-6.fc40.x86_64 llvm-libs-17.0.6-6.fc40.x86_64 llvm-static-17.0.6-6.fc40.x86_64 llvm-test-17.0.6-6.fc40.x86_64 lua-5.4.6-5.fc40.x86_64 lua-filesystem-1.8.0-11.fc40.x86_64 lua-json-1.3.4-6.fc40.noarch lua-lpeg-1.0.2-13.fc40.x86_64 lua-posix-36.2.1-3.fc39.x86_64 lua-term-0.08-3.fc40.x86_64 make-1:4.4.1-6.fc40.x86_64 mesa-libEGL-24.0.0-1.fc40.x86_64 mesa-libGL-24.0.0-1.fc40.x86_64 mesa-libGLU-9.0.3-4.fc40.x86_64 mesa-libGLU-devel-9.0.3-4.fc40.x86_64 mesa-libgbm-24.0.0-1.fc40.x86_64 mesa-libglapi-24.0.0-1.fc40.x86_64 metis-5.1.0.3-5.fc40.x86_64 mkfontscale-1.2.2-6.fc40.x86_64 mockito-5.8.0-3.fc40.noarch mp-3.1.0-45.20200303git7fd4828.fc40.x86_64 mpdecimal-2.5.1-9.fc40.x86_64 mtdev-1.1.6-8.fc40.x86_64 ncurses-c++-libs-6.4-12.20240127.fc40.x86_64 ncurses-devel-6.4-12.20240127.fc40.x86_64 nettle-3.9.1-6.fc40.x86_64 nspr-4.35.0-20.fc40.x86_64 nss-3.97.0-1.fc40.x86_64 nss-softokn-3.97.0-1.fc40.x86_64 nss-softokn-freebl-3.97.0-1.fc40.x86_64 nss-sysinit-3.97.0-1.fc40.x86_64 nss-util-3.97.0-1.fc40.x86_64 objectweb-asm-9.6-3.fc40.noarch objenesis-3.3-7.fc40.noarch openblas-0.3.26-1.fc40.x86_64 openblas-openmp-0.3.26-1.fc40.x86_64 opentest4j-1.3.0-4.fc40.noarch pcre2-devel-10.42-2.fc40.2.x86_64 pcre2-utf16-10.42-2.fc40.2.x86_64 pcre2-utf32-10.42-2.fc40.2.x86_64 pixman-0.43.0-3.fc40.x86_64 procps-ng-4.0.4-3.fc40.x86_64 pyproject-rpm-macros-1.12.0-1.fc40.noarch python-pip-wheel-23.3.2-1.fc40.noarch python-rpm-macros-3.12-7.fc40.noarch python3-3.12.1-4.fc40.x86_64 python3-devel-3.12.1-4.fc40.x86_64 python3-libs-3.12.1-4.fc40.x86_64 python3-numpy-1:1.26.2-4.fc40.x86_64 python3-packaging-23.2-4.fc40.noarch python3-rpm-generators-14-10.fc40.noarch python3-rpm-macros-3.12-7.fc40.noarch python3-setuptools-68.2.2-3.fc40.noarch qt-1:4.8.7-76.fc40.x86_64 qt-common-1:4.8.7-76.fc40.noarch qt-devel-1:4.8.7-76.fc40.x86_64 qt-settings-39.1-6.fc40.noarch qt-x11-1:4.8.7-76.fc40.x86_64 qt5-qtbase-5.15.12-4.fc40.x86_64 qt5-qtbase-common-5.15.12-4.fc40.noarch qt5-qtbase-gui-5.15.12-4.fc40.x86_64 rhash-1.4.3-4.fc40.x86_64 scotch-7.0.4-3.fc40.x86_64 scotch-devel-7.0.4-3.fc40.x86_64 suitesparse-5.13.0-5.fc40.x86_64 sysprof-capture-devel-45.1-2.fc40.x86_64 tcl-1:8.6.13-2.fc40.x86_64 ttmkfdir-3.0.9-70.fc40.x86_64 tzdata-2023d-3.fc40.noarch tzdata-java-2023d-3.fc40.noarch unixODBC-2.3.12-4.fc40.x86_64 vim-filesystem-2:9.1.031-2.fc40.noarch xcb-util-0.4.1-5.fc40.x86_64 xcb-util-image-0.4.1-5.fc40.x86_64 xcb-util-keysyms-0.4.1-5.fc40.x86_64 xcb-util-renderutil-0.3.10-5.fc40.x86_64 xcb-util-wm-0.4.2-5.fc40.x86_64 xkeyboard-config-2.40-3.fc40.noarch xml-common-0.6.3-63.fc40.noarch xorg-x11-fonts-Type1-7.5-38.fc40.noarch xorg-x11-proto-devel-2023.2-4.fc40.noarch xz-devel-5.4.6-1.fc40.x86_64 zlib-ng-compat-devel-2.1.6-2.fc40.x86_64 Complete! Finish: build setup for seqan-1.4.2-54.fc40.src.rpm Start: rpmbuild seqan-1.4.2-54.fc40.src.rpm Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1706659200 Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.Gh9AKG + umask 022 + cd /builddir/build/BUILD + cd /builddir/build/BUILD + rm -rf seqan-1.4.2 + /usr/lib/rpm/rpmuncompress -x /builddir/build/SOURCES/seqan-src-1.4.2.tar.gz + STATUS=0 + '[' 0 -ne 0 ']' + cd seqan-1.4.2 + rm -rf /builddir/build/BUILD/seqan-1.4.2-SPECPARTS + /usr/bin/mkdir -p /builddir/build/BUILD/seqan-1.4.2-SPECPARTS + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w . Patch #0 (seqan-docpath.patch): + echo 'Patch #0 (seqan-docpath.patch):' + /usr/bin/patch --no-backup-if-mismatch -f -p0 --fuzz=0 patching file util/cmake/SeqAnBuildSystem.cmake Patch #1 (seqan-exclude_splazers_fiona_tests.patch): + echo 'Patch #1 (seqan-exclude_splazers_fiona_tests.patch):' + /usr/bin/patch --no-backup-if-mismatch -f -p0 --fuzz=0 patching file core/apps/splazers/CMakeLists.txt patching file core/apps/fiona/CMakeLists.txt + find . -type f -name '*.h' -exec chmod 0644 '{}' ';' + find . -type f -name '*.cpp' -exec chmod 0644 '{}' ';' + cp -p extras/apps/rep_sep/LICENSE LGPLv3+.txt + cp -p core/apps/rabema/LICENSE GPLv3+.txt + cp -p LICENSE BSD.txt + cp -p extras/apps/seqan_flexbar/INFO extras/apps/seqan_flexbar/README + RPM_EC=0 ++ jobs -p + exit 0 Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.4sfnbs + umask 022 + cd /builddir/build/BUILD + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer ' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer ' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules ' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules ' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-Wl,-z,relro -Clink-arg=-Wl,-z,now -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn' + export RUSTFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd seqan-1.4.2 + mkdir -p build/Release ~/build/BUILD/seqan-1.4.2/build/Release ~/build/BUILD/seqan-1.4.2 + pushd build/Release + SEQAN_OPT_FLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC' + export 'CXXFLAGS=-std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon' + CXXFLAGS='-std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon' + export 'LDFLAGS=-Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes -fPIC' + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes -fPIC' + cmake '-DCMAKE_CXX_FLAGS_RELEASE:STRING=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC' -DCMAKE_INSTALL_PREFIX:PATH=/usr -DSYSCONF_INSTALL_DIR:PATH=/etc -DSHARE_INSTALL_PREFIX:PATH=/usr/share -DBUILD_SHARED_LIBS:BOOL=OFF -DCMAKE_SKIP_RPATH:BOOL=YES -DCMAKE_SKIP_INSTALL_RPATH:BOOL=YES -DCMAKE_VERBOSE_MAKEFILE:BOOL=TRUE -DCMAKE_BUILD_TYPE:STRING=Release -DSEQAN_BUILD_SYSTEM=SEQAN_RELEASE_APPS -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_APP_VERSION:STRING=1.4.2 -DZLIB_INCLUDE_DIR:PATH=/usr/include '-DZLIB_LIBRARY:FILEPATH=-L/usr/lib64 -lz' -DBZIP2_INCLUDE_DIR:PATH=/usr/include '-DBZIP2_LIBRARY:FILEPATH=-L/usr/lib64 -lbz2' -DLEMON_INCLUDE_DIR:PATH=/usr/include '-DLEMON_LIBRARY:FILEPATH=-L/usr/lib64 -lemon' -DBoost_INCLUDE_DIR:PATH=/usr/include -DPYTHON_EXECUTABLE:FILEPATH=/usr/bin/python3 ../.. CMake Warning (dev) at CMakeLists.txt:9 (project): cmake_minimum_required() should be called prior to this top-level project() call. Please see the cmake-commands(7) manual for usage documentation of both commands. This warning is for project developers. Use -Wno-dev to suppress it. -- The C compiler identification is GNU 14.0.1 -- The CXX compiler identification is GNU 14.0.1 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/gcc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/g++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done CMake Deprecation Warning at CMakeLists.txt:16 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Initializing SeqAn Build System... -- No revision system found. -- Repository date not determined. -- Repository revision not determined. -- Configuring core CMake Deprecation Warning at core/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. CMake Deprecation Warning at core/apps/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring core/apps CMake Deprecation Warning at core/apps/dfi/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring core/apps/dfi CMake Warning (dev) at util/cmake/FindSeqAn.cmake:164 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): core/apps/dfi/CMakeLists.txt:19 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. -- Looking for include file execinfo.h -- Looking for include file execinfo.h - found -- Determined version is 1.4.2 CMake Warning (dev) at util/cmake/SeqAnBuildSystem.cmake:223 (find_package): Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules are removed. Run "cmake --help-policy CMP0148" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Call Stack (most recent call first): core/apps/dfi/CMakeLists.txt:70 (seqan_add_app_test) This warning is for project developers. Use -Wno-dev to suppress it. -- Found PythonInterp: /usr/bin/python3 (found version "3.12.1") CMake Deprecation Warning at core/apps/fiona/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring core/apps/fiona CMake Warning (dev) at util/cmake/FindSeqAn.cmake:164 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): core/apps/fiona/CMakeLists.txt:19 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. -- Try OpenMP C flag = [-fopenmp] -- Performing Test OpenMP_FLAG_DETECTED -- Performing Test OpenMP_FLAG_DETECTED - Success -- Try OpenMP CXX flag = [-fopenmp] -- Performing Test OpenMP_FLAG_DETECTED -- Performing Test OpenMP_FLAG_DETECTED - Success -- Found Boost: /usr/lib64/cmake/Boost-1.83.0/BoostConfig.cmake (found version "1.83.0") CMake Deprecation Warning at core/apps/mason/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring core/apps/mason CMake Warning (dev) at util/cmake/FindSeqAn.cmake:164 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): core/apps/mason/CMakeLists.txt:19 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at util/cmake/SeqAnBuildSystem.cmake:223 (find_package): Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules are removed. Run "cmake --help-policy CMP0148" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Call Stack (most recent call first): core/apps/mason/CMakeLists.txt:76 (seqan_add_app_test) This warning is for project developers. Use -Wno-dev to suppress it. CMake Deprecation Warning at core/apps/micro_razers/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring core/apps/micro_razers CMake Warning (dev) at util/cmake/FindSeqAn.cmake:164 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): core/apps/micro_razers/CMakeLists.txt:19 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at util/cmake/SeqAnBuildSystem.cmake:223 (find_package): Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules are removed. Run "cmake --help-policy CMP0148" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Call Stack (most recent call first): core/apps/micro_razers/CMakeLists.txt:73 (seqan_add_app_test) This warning is for project developers. Use -Wno-dev to suppress it. CMake Deprecation Warning at core/apps/pair_align/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring core/apps/pair_align CMake Warning (dev) at util/cmake/FindSeqAn.cmake:164 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): core/apps/pair_align/CMakeLists.txt:19 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at util/cmake/SeqAnBuildSystem.cmake:223 (find_package): Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules are removed. Run "cmake --help-policy CMP0148" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Call Stack (most recent call first): core/apps/pair_align/CMakeLists.txt:63 (seqan_add_app_test) This warning is for project developers. Use -Wno-dev to suppress it. CMake Deprecation Warning at core/apps/rabema/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring core/apps/rabema CMake Warning (dev) at util/cmake/FindSeqAn.cmake:164 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): core/apps/rabema/CMakeLists.txt:19 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at util/cmake/SeqAnBuildSystem.cmake:223 (find_package): Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules are removed. Run "cmake --help-policy CMP0148" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Call Stack (most recent call first): core/apps/rabema/CMakeLists.txt:101 (seqan_add_app_test) This warning is for project developers. Use -Wno-dev to suppress it. CMake Deprecation Warning at core/apps/razers/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring core/apps/razers CMake Warning (dev) at util/cmake/FindSeqAn.cmake:164 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): core/apps/razers/CMakeLists.txt:19 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at util/cmake/SeqAnBuildSystem.cmake:223 (find_package): Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules are removed. Run "cmake --help-policy CMP0148" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Call Stack (most recent call first): core/apps/razers/CMakeLists.txt:81 (seqan_add_app_test) This warning is for project developers. Use -Wno-dev to suppress it. CMake Deprecation Warning at core/apps/razers2/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring core/apps/razers2 CMake Warning (dev) at util/cmake/FindSeqAn.cmake:164 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): core/apps/razers2/CMakeLists.txt:20 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at util/cmake/SeqAnBuildSystem.cmake:223 (find_package): Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules are removed. Run "cmake --help-policy CMP0148" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Call Stack (most recent call first): core/apps/razers2/CMakeLists.txt:82 (seqan_add_app_test) This warning is for project developers. Use -Wno-dev to suppress it. CMake Deprecation Warning at core/apps/sak/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring core/apps/sak CMake Warning (dev) at util/cmake/FindSeqAn.cmake:164 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): core/apps/sak/CMakeLists.txt:19 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at util/cmake/SeqAnBuildSystem.cmake:223 (find_package): Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules are removed. Run "cmake --help-policy CMP0148" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Call Stack (most recent call first): core/apps/sak/CMakeLists.txt:78 (seqan_add_app_test) This warning is for project developers. Use -Wno-dev to suppress it. CMake Deprecation Warning at core/apps/sam2matrix/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring core/apps/sam2matrix CMake Warning (dev) at util/cmake/FindSeqAn.cmake:164 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): core/apps/sam2matrix/CMakeLists.txt:19 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at util/cmake/SeqAnBuildSystem.cmake:223 (find_package): Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules are removed. Run "cmake --help-policy CMP0148" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Call Stack (most recent call first): core/apps/sam2matrix/CMakeLists.txt:66 (seqan_add_app_test) This warning is for project developers. Use -Wno-dev to suppress it. CMake Deprecation Warning at core/apps/samcat/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring core/apps/samcat CMake Warning (dev) at util/cmake/FindSeqAn.cmake:164 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): core/apps/samcat/CMakeLists.txt:19 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at util/cmake/SeqAnBuildSystem.cmake:223 (find_package): Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules are removed. Run "cmake --help-policy CMP0148" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Call Stack (most recent call first): core/apps/samcat/CMakeLists.txt:66 (seqan_add_app_test) This warning is for project developers. Use -Wno-dev to suppress it. CMake Deprecation Warning at core/apps/seqan_tcoffee/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring core/apps/seqan_tcoffee CMake Warning (dev) at util/cmake/FindSeqAn.cmake:164 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): core/apps/seqan_tcoffee/CMakeLists.txt:19 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at util/cmake/SeqAnBuildSystem.cmake:223 (find_package): Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules are removed. Run "cmake --help-policy CMP0148" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Call Stack (most recent call first): core/apps/seqan_tcoffee/CMakeLists.txt:65 (seqan_add_app_test) This warning is for project developers. Use -Wno-dev to suppress it. CMake Deprecation Warning at core/apps/seqcons/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring core/apps/seqcons CMake Warning (dev) at util/cmake/FindSeqAn.cmake:164 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): core/apps/seqcons/CMakeLists.txt:19 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. CMake Deprecation Warning at core/apps/snp_store/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring core/apps/snp_store CMake Warning (dev) at util/cmake/FindSeqAn.cmake:164 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): core/apps/snp_store/CMakeLists.txt:19 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at util/cmake/SeqAnBuildSystem.cmake:223 (find_package): Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules are removed. Run "cmake --help-policy CMP0148" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Call Stack (most recent call first): core/apps/snp_store/CMakeLists.txt:86 (seqan_add_app_test) This warning is for project developers. Use -Wno-dev to suppress it. CMake Deprecation Warning at core/apps/splazers/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring core/apps/splazers CMake Warning (dev) at util/cmake/FindSeqAn.cmake:164 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): core/apps/splazers/CMakeLists.txt:19 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. CMake Deprecation Warning at core/apps/stellar/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring core/apps/stellar CMake Warning (dev) at util/cmake/FindSeqAn.cmake:164 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): core/apps/stellar/CMakeLists.txt:19 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at util/cmake/SeqAnBuildSystem.cmake:223 (find_package): Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules are removed. Run "cmake --help-policy CMP0148" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Call Stack (most recent call first): core/apps/stellar/CMakeLists.txt:71 (seqan_add_app_test) This warning is for project developers. Use -Wno-dev to suppress it. CMake Deprecation Warning at core/apps/tree_recon/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring core/apps/tree_recon CMake Warning (dev) at util/cmake/FindSeqAn.cmake:164 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): core/apps/tree_recon/CMakeLists.txt:19 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at util/cmake/SeqAnBuildSystem.cmake:223 (find_package): Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules are removed. Run "cmake --help-policy CMP0148" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Call Stack (most recent call first): core/apps/tree_recon/CMakeLists.txt:65 (seqan_add_app_test) This warning is for project developers. Use -Wno-dev to suppress it. -- Configuring extras CMake Deprecation Warning at extras/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. CMake Deprecation Warning at extras/apps/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring extras/apps CMake Deprecation Warning at extras/apps/alf/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring extras/apps/alf CMake Warning (dev) at util/cmake/FindSeqAn.cmake:164 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): extras/apps/alf/CMakeLists.txt:19 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. CMake Deprecation Warning at extras/apps/breakpoint_calculator/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring extras/apps/breakpoint_calculator CMake Warning (dev) at util/cmake/FindSeqAn.cmake:164 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): extras/apps/breakpoint_calculator/CMakeLists.txt:19 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at util/cmake/SeqAnBuildSystem.cmake:223 (find_package): Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules are removed. Run "cmake --help-policy CMP0148" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Call Stack (most recent call first): extras/apps/breakpoint_calculator/CMakeLists.txt:81 (seqan_add_app_test) This warning is for project developers. Use -Wno-dev to suppress it. CMake Deprecation Warning at extras/apps/bs_tools/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring extras/apps/bs_tools CMake Warning (dev) at util/cmake/FindSeqAn.cmake:164 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): extras/apps/bs_tools/CMakeLists.txt:20 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at util/cmake/SeqAnBuildSystem.cmake:223 (find_package): Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules are removed. Run "cmake --help-policy CMP0148" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Call Stack (most recent call first): extras/apps/bs_tools/CMakeLists.txt:109 (seqan_add_app_test) This warning is for project developers. Use -Wno-dev to suppress it. CMake Deprecation Warning at extras/apps/fx_tools/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring extras/apps/fx_tools CMake Warning (dev) at util/cmake/FindSeqAn.cmake:164 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): extras/apps/fx_tools/CMakeLists.txt:19 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. CMake Deprecation Warning at extras/apps/gustaf/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring extras/apps/gustaf CMake Warning (dev) at util/cmake/FindSeqAn.cmake:164 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): extras/apps/gustaf/CMakeLists.txt:19 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at util/cmake/SeqAnBuildSystem.cmake:223 (find_package): Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules are removed. Run "cmake --help-policy CMP0148" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Call Stack (most recent call first): extras/apps/gustaf/CMakeLists.txt:68 (seqan_add_app_test) This warning is for project developers. Use -Wno-dev to suppress it. CMake Deprecation Warning at extras/apps/insegt/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring extras/apps/insegt CMake Warning (dev) at util/cmake/FindSeqAn.cmake:164 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): extras/apps/insegt/CMakeLists.txt:19 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at util/cmake/SeqAnBuildSystem.cmake:223 (find_package): Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules are removed. Run "cmake --help-policy CMP0148" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Call Stack (most recent call first): extras/apps/insegt/CMakeLists.txt:80 (seqan_add_app_test) This warning is for project developers. Use -Wno-dev to suppress it. CMake Deprecation Warning at extras/apps/mason2/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring extras/apps/mason2 CMake Warning (dev) at util/cmake/FindSeqAn.cmake:164 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): extras/apps/mason2/CMakeLists.txt:19 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at util/cmake/SeqAnBuildSystem.cmake:223 (find_package): Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules are removed. Run "cmake --help-policy CMP0148" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Call Stack (most recent call first): extras/apps/mason2/CMakeLists.txt:155 (seqan_add_app_test) This warning is for project developers. Use -Wno-dev to suppress it. CMake Deprecation Warning at extras/apps/ngs_roi/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring sandbox/jagla/apps/ngs_roi CMake Warning (dev) at util/cmake/FindSeqAn.cmake:164 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): extras/apps/ngs_roi/CMakeLists.txt:20 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at util/cmake/SeqAnBuildSystem.cmake:223 (find_package): Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules are removed. Run "cmake --help-policy CMP0148" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Call Stack (most recent call first): extras/apps/ngs_roi/CMakeLists.txt:101 (seqan_add_app_test) This warning is for project developers. Use -Wno-dev to suppress it. CMake Deprecation Warning at extras/apps/param_chooser/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring extras/apps/param_chooser CMake Warning (dev) at util/cmake/FindSeqAn.cmake:164 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): extras/apps/param_chooser/CMakeLists.txt:19 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. CMake Deprecation Warning at extras/apps/razers3/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring extras/apps/razers3 -- Performing Test CXX11_FOUND -- Performing Test CXX11_FOUND - Success CMake Warning (dev) at util/cmake/FindSeqAn.cmake:164 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): extras/apps/razers3/CMakeLists.txt:27 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. -- Looking for BZ2_bzCompressInit in -L/usr/lib64 -lbz2 -- Looking for BZ2_bzCompressInit in -L/usr/lib64 -lbz2 - found CMake Warning (dev) at util/cmake/SeqAnBuildSystem.cmake:223 (find_package): Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules are removed. Run "cmake --help-policy CMP0148" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Call Stack (most recent call first): extras/apps/razers3/CMakeLists.txt:108 (seqan_add_app_test) This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at util/cmake/SeqAnBuildSystem.cmake:223 (find_package): Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules are removed. Run "cmake --help-policy CMP0148" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Call Stack (most recent call first): extras/apps/razers3/CMakeLists.txt:112 (seqan_add_app_test) This warning is for project developers. Use -Wno-dev to suppress it. CMake Deprecation Warning at extras/apps/rep_sep/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring extras/apps/rep_sep CMake Warning (dev) at util/cmake/FindSeqAn.cmake:164 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): extras/apps/rep_sep/CMakeLists.txt:19 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. CMake Deprecation Warning at extras/apps/searchjoin/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring extras/apps/searchjoin CMake Warning (dev) at util/cmake/FindSeqAn.cmake:164 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): extras/apps/searchjoin/CMakeLists.txt:19 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at util/cmake/SeqAnBuildSystem.cmake:223 (find_package): Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules are removed. Run "cmake --help-policy CMP0148" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Call Stack (most recent call first): extras/apps/searchjoin/CMakeLists.txt:69 (seqan_add_app_test) This warning is for project developers. Use -Wno-dev to suppress it. CMake Deprecation Warning at extras/apps/seqan_flexbar/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring extras/apps/seqan_flexbar CMake Warning (dev) at util/cmake/FindSeqAn.cmake:164 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): extras/apps/seqan_flexbar/CMakeLists.txt:19 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at util/cmake/SeqAnBuildSystem.cmake:223 (find_package): Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules are removed. Run "cmake --help-policy CMP0148" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Call Stack (most recent call first): extras/apps/seqan_flexbar/CMakeLists.txt:92 (seqan_add_app_test) This warning is for project developers. Use -Wno-dev to suppress it. CMake Deprecation Warning at extras/apps/sgip/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring extras/apps/sgip CMake Warning (dev) at util/cmake/FindSeqAn.cmake:164 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): extras/apps/sgip/CMakeLists.txt:28 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at util/cmake/SeqAnBuildSystem.cmake:223 (find_package): Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules are removed. Run "cmake --help-policy CMP0148" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Call Stack (most recent call first): extras/apps/sgip/CMakeLists.txt:81 (seqan_add_app_test) This warning is for project developers. Use -Wno-dev to suppress it. CMake Deprecation Warning at extras/apps/variant_comp/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring extras/apps/variant_comp CMake Warning (dev) at util/cmake/FindSeqAn.cmake:164 (EXEC_PROGRAM): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): extras/apps/variant_comp/CMakeLists.txt:19 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at util/cmake/SeqAnBuildSystem.cmake:223 (find_package): Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules are removed. Run "cmake --help-policy CMP0148" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Call Stack (most recent call first): extras/apps/variant_comp/CMakeLists.txt:65 (seqan_add_app_test) This warning is for project developers. Use -Wno-dev to suppress it. -- Configuring docs CMake Deprecation Warning at docs/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring manual CMake Deprecation Warning at manual/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Could NOT find Sphinx (missing: SPHINX_EXECUTABLE) -- Sphinx not found, not building sphinx manual as a test. -- Configuring sandbox CMake Deprecation Warning at sandbox/CMakeLists.txt:9 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring util/py_lib CMake Warning (dev) at util/py_lib/CMakeLists.txt:12 (find_package): Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules are removed. Run "cmake --help-policy CMP0148" for policy details. Use the cmake_policy command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. -- Python nosetests ('import nose' failed), cannot add tests for seqan.dox -- Found Java: /usr/bin/java (found version "17.0.10") -- Configuring done (2.9s) -- Generating done (0.1s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_SKIP_INSTALL_RPATH SEQAN_APP_VERSION SHARE_INSTALL_PREFIX SYSCONF_INSTALL_DIR -- Build files have been written to: /builddir/build/BUILD/seqan-1.4.2/build/Release + make -j1 all /usr/bin/cmake -S/builddir/build/BUILD/seqan-1.4.2 -B/builddir/build/BUILD/seqan-1.4.2/build/Release --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /builddir/build/BUILD/seqan-1.4.2/build/Release/CMakeFiles /builddir/build/BUILD/seqan-1.4.2/build/Release//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[1]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f core/CMakeFiles/seqan_core.dir/build.make core/CMakeFiles/seqan_core.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core /builddir/build/BUILD/seqan-1.4.2/build/Release/core/CMakeFiles/seqan_core.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f core/CMakeFiles/seqan_core.dir/build.make core/CMakeFiles/seqan_core.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'core/CMakeFiles/seqan_core.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 0%] Built target seqan_core make -f core/apps/dfi/CMakeFiles/dfi.dir/build.make core/apps/dfi/CMakeFiles/dfi.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/dfi /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/dfi/CMakeFiles/dfi.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f core/apps/dfi/CMakeFiles/dfi.dir/build.make core/apps/dfi/CMakeFiles/dfi.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 1%] Building CXX object core/apps/dfi/CMakeFiles/dfi.dir/dfi.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/dfi && /usr/bin/g++ -DSEQAN_DATE=\"\" -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT core/apps/dfi/CMakeFiles/dfi.dir/dfi.cpp.o -MF CMakeFiles/dfi.dir/dfi.cpp.o.d -o CMakeFiles/dfi.dir/dfi.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:45, from /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:44: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:62, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:40, from /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:28: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:45:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:54:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:63:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 63 | struct filterI3 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:401:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 401 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:507:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 507 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:78: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:42:48: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public ::std::binary_function < PageBucket, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:57:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:257:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 257 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:372:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 372 | struct insertBucket : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:44: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_set.h:373:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:404:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 404 | public::std::binary_function // functor for operator> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:744:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 744 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:760:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 760 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:80: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:854:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 854 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:902:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 902 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:970:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 970 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1039:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1039 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1073:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1073 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1121:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1121 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2093:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2093 | struct _qgramComp : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2112:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2112 | public ::std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:46:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 46 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:85:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 85 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:96: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:98:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 98 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:112:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 112 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:127:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:144:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:154:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:99: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:110:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 110 | public ::std::binary_function < SkewDCStream, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:143:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 143 | public ::std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:100: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:99:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 99 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:118:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:132:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 132 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:154:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:175:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 175 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:185:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 185 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:103: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:57:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:97:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 97 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:141:29: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:109: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:59:42: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:164:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, KasaiOriginal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:312:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 312 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:313:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 313 | LCP[isa - 1] = h; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:379:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 379 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:380:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 380 | LCP[i] = h | mark; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const StringSet&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:483:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 483 | for(TSize hMax = _min(getValueI2((TPair)dec), n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:484:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 484 | LCP[i] = h | mark; | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:113: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h:144:50: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:585:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 585 | public ::std::binary_function< Pair, Pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:128: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In function ‘void seqan::_storeWotdChildren(Index > >&, TSize, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:504:27: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 504 | } else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:506:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 506 | for (TDirSize d = index.sentinelBound - index.sentinelOcc; d != index.sentinelBound; ++d) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:136: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h:149:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 149 | struct RepeatLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:157: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h: In function ‘typename seqan::Iterator >::Type seqan::_upperBoundLcpe(TText&, TSA&, SearchTreeIterator, TQuery&, TDiff_, TDiff_)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1498:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1498 | for(; i && ordEqual(*t, convert(*q)); --i, ++t, ++q) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1501 | if (q == qEnd || t == tEnd || !ordGreater(*t, convert(*q))) { | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:274:34: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 274 | struct LessSubstringEnd : public binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:298:27: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 298 | struct LessRange : public binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:315:25: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 315 | struct LessLex : public binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In instantiation of ‘TSize seqan::_sortWotdBucket(Index, IndexWotd > >&, TBeginPos, TEndPos, TSize) [with TText = String; TSpec = Owner<>; TPredHull = PredMinFreq; TPred = PredMaxFreq; TBeginPos = long unsigned int; TEndPos = long unsigned int; TSize = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:1871:32: required from ‘typename seqan::Size > >::Type seqan::_wotdEvaluate(const Iter >, VSTree >&) [with TText = StringSet, Owner<> >; TIndexSpec = Dfi; TSpec = TopDown >; typename Size > >::Type = long unsigned int]’ /usr/include/c++/14/bits/stl_function.h:131:12: note: 1871 | TSize size = _sortWotdBucket( /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~~~~~~~~~^ 1872 | index, /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~ 1873 | value(it).range.i1, /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~~~~~~~~~~~~~ 1874 | w1 & index.BITMASK1, /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~~~~~~~~~~~~~~ 1875 | repLength(it)); /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:800:34: required from ‘bool seqan::_goDown(Iter >, VSTree > >&, VSTreeIteratorTraits) [with TText = StringSet, Owner<> >; TIndexSpec = Dfi; TSpec = ParentLinks; TDfsOrder = Preorder_; THideEmptyEdges = True]’ /usr/include/c++/14/bits/stl_function.h:131:12: note: 800 | TSize childNode = _wotdEvaluate(it); /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2296:14: required from ‘bool seqan::goDown(Iter > >&) [with TIndex = Index, Owner<> >, IndexWotd > >; TSpec = ParentLinks]’ /usr/include/c++/14/bits/stl_function.h:131:12: note: 2296 | if (_goDown(it, typename GetVSTreeIteratorTraits< Iter > > >::Type())) { /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:1977:17: required from ‘void seqan::goBegin(Iter, VSTree >&) [with TText = StringSet, Owner<> >; TIndexSpec = IndexWotd >; TSpec = TopDown >]’ /usr/include/c++/14/bits/stl_function.h:131:12: note: 1977 | while (goDown(it)) ; /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:537:9: required from ‘int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool, const DFIOptions&) [with TPredHull = PredMinFreq; TPred = PredMaxFreq; TAlphabet = unsigned char; TParamPredHull = seqan::String >; TParamPred = seqan::String >; TFileNames = std::vector >]’ /usr/include/c++/14/bits/stl_function.h:131:12: note: 537 | goBegin(it); /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:847:68: required from here /usr/include/c++/14/bits/stl_function.h:131:12: note: 847 | case 0: return runDFI (getArgumentValues(parser, 0), options.minFreq, options.maxFreq, options.maximal, options); /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:448:111: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 448 | *(saBeg + (*(boundBeg + ordValue(*(itText + getSeqOffset(lPos)))))++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:55, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:71: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:451:82: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 451 | *(saBeg + index.sentinelBound++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In instantiation of ‘TSize seqan::_sortWotdBucket(Index, IndexWotd > >&, TBeginPos, TEndPos, TSize) [with TText = String, Alloc<> >; TSpec = Owner<>; TPredHull = PredMinFreq; TPred = PredMaxFreq; TBeginPos = long unsigned int; TEndPos = long unsigned int; TSize = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:1871:32: required from ‘typename seqan::Size > >::Type seqan::_wotdEvaluate(const Iter >, VSTree >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = Dfi; TSpec = TopDown >; typename Size > >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1871 | TSize size = _sortWotdBucket( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^ 1872 | index, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~ 1873 | value(it).range.i1, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~ 1874 | w1 & index.BITMASK1, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~ 1875 | repLength(it)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:800:34: required from ‘bool seqan::_goDown(Iter >, VSTree > >&, VSTreeIteratorTraits) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = Dfi; TSpec = ParentLinks; TDfsOrder = Preorder_; THideEmptyEdges = True]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 800 | TSize childNode = _wotdEvaluate(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2296:14: required from ‘bool seqan::goDown(Iter > >&) [with TIndex = Index, Alloc<> >, Owner<> >, IndexWotd > >; TSpec = ParentLinks]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2296 | if (_goDown(it, typename GetVSTreeIteratorTraits< Iter > > >::Type())) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:1977:17: required from ‘void seqan::goBegin(Iter, VSTree >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = IndexWotd >; TSpec = TopDown >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1977 | while (goDown(it)) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:537:9: required from ‘int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool, const DFIOptions&) [with TPredHull = PredMinFreq; TPred = PredMaxFreq; TAlphabet = seqan::SimpleType; TParamPredHull = seqan::String >; TParamPred = seqan::String >; TFileNames = std::vector >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 537 | goBegin(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:848:64: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 848 | case 1: return runDFI (getArgumentValues(parser, 0), options.minFreq, options.maxFreq, options.maximal, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:448:111: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 448 | *(saBeg + (*(boundBeg + ordValue(*(itText + getSeqOffset(lPos)))))++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:451:82: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 451 | *(saBeg + index.sentinelBound++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In instantiation of ‘TSize seqan::_sortWotdBucket(Index, IndexWotd > >&, TBeginPos, TEndPos, TSize) [with TText = String, Alloc<> >; TSpec = Owner<>; TPredHull = PredMinFreq; TPred = PredMaxFreq; TBeginPos = long unsigned int; TEndPos = long unsigned int; TSize = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:1871:32: required from ‘typename seqan::Size > >::Type seqan::_wotdEvaluate(const Iter >, VSTree >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = Dfi; TSpec = TopDown >; typename Size > >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1871 | TSize size = _sortWotdBucket( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^ 1872 | index, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~ 1873 | value(it).range.i1, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~ 1874 | w1 & index.BITMASK1, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~ 1875 | repLength(it)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:800:34: required from ‘bool seqan::_goDown(Iter >, VSTree > >&, VSTreeIteratorTraits) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = Dfi; TSpec = ParentLinks; TDfsOrder = Preorder_; THideEmptyEdges = True]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 800 | TSize childNode = _wotdEvaluate(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2296:14: required from ‘bool seqan::goDown(Iter > >&) [with TIndex = Index, Alloc<> >, Owner<> >, IndexWotd > >; TSpec = ParentLinks]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2296 | if (_goDown(it, typename GetVSTreeIteratorTraits< Iter > > >::Type())) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:1977:17: required from ‘void seqan::goBegin(Iter, VSTree >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = IndexWotd >; TSpec = TopDown >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1977 | while (goDown(it)) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:537:9: required from ‘int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool, const DFIOptions&) [with TPredHull = PredMinFreq; TPred = PredMaxFreq; TAlphabet = seqan::SimpleType; TParamPredHull = seqan::String >; TParamPred = seqan::String >; TFileNames = std::vector >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 537 | goBegin(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:849:58: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 849 | case 2: return runDFI (getArgumentValues(parser, 0), options.minFreq, options.maxFreq, options.maximal, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:448:111: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 448 | *(saBeg + (*(boundBeg + ordValue(*(itText + getSeqOffset(lPos)))))++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:451:82: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 451 | *(saBeg + index.sentinelBound++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In instantiation of ‘TSize seqan::_sortWotdBucket(Index, IndexWotd > >&, TBeginPos, TEndPos, TSize) [with TText = String; TSpec = Owner<>; TPredHull = PredMinSupp; TPred = PredEmerging; TBeginPos = long unsigned int; TEndPos = long unsigned int; TSize = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:1871:32: required from ‘typename seqan::Size > >::Type seqan::_wotdEvaluate(const Iter >, VSTree >&) [with TText = StringSet, Owner<> >; TIndexSpec = Dfi; TSpec = TopDown >; typename Size > >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1871 | TSize size = _sortWotdBucket( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^ 1872 | index, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~ 1873 | value(it).range.i1, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~ 1874 | w1 & index.BITMASK1, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~ 1875 | repLength(it)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:800:34: required from ‘bool seqan::_goDown(Iter >, VSTree > >&, VSTreeIteratorTraits) [with TText = StringSet, Owner<> >; TIndexSpec = Dfi; TSpec = ParentLinks; TDfsOrder = Preorder_; THideEmptyEdges = True]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 800 | TSize childNode = _wotdEvaluate(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2296:14: required from ‘bool seqan::goDown(Iter > >&) [with TIndex = Index, Owner<> >, IndexWotd > >; TSpec = ParentLinks]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2296 | if (_goDown(it, typename GetVSTreeIteratorTraits< Iter > > >::Type())) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:1977:17: required from ‘void seqan::goBegin(Iter, VSTree >&) [with TText = StringSet, Owner<> >; TIndexSpec = IndexWotd >; TSpec = TopDown >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1977 | while (goDown(it)) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:537:9: required from ‘int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool, const DFIOptions&) [with TPredHull = PredMinSupp; TPred = PredEmerging; TAlphabet = unsigned char; TParamPredHull = double; TParamPred = double; TFileNames = std::vector >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 537 | goBegin(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:854:69: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 854 | case 0: return runDFI (getArgumentValues(parser, 0), options.minSupp, options.growthRate, options.maximal, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:448:111: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 448 | *(saBeg + (*(boundBeg + ordValue(*(itText + getSeqOffset(lPos)))))++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:451:82: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 451 | *(saBeg + index.sentinelBound++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In instantiation of ‘TSize seqan::_sortWotdBucket(Index, IndexWotd > >&, TBeginPos, TEndPos, TSize) [with TText = String, Alloc<> >; TSpec = Owner<>; TPredHull = PredMinSupp; TPred = PredEmerging; TBeginPos = long unsigned int; TEndPos = long unsigned int; TSize = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:1871:32: required from ‘typename seqan::Size > >::Type seqan::_wotdEvaluate(const Iter >, VSTree >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = Dfi; TSpec = TopDown >; typename Size > >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1871 | TSize size = _sortWotdBucket( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^ 1872 | index, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~ 1873 | value(it).range.i1, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~ 1874 | w1 & index.BITMASK1, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~ 1875 | repLength(it)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:800:34: required from ‘bool seqan::_goDown(Iter >, VSTree > >&, VSTreeIteratorTraits) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = Dfi; TSpec = ParentLinks; TDfsOrder = Preorder_; THideEmptyEdges = True]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 800 | TSize childNode = _wotdEvaluate(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2296:14: required from ‘bool seqan::goDown(Iter > >&) [with TIndex = Index, Alloc<> >, Owner<> >, IndexWotd > >; TSpec = ParentLinks]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2296 | if (_goDown(it, typename GetVSTreeIteratorTraits< Iter > > >::Type())) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:1977:17: required from ‘void seqan::goBegin(Iter, VSTree >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = IndexWotd >; TSpec = TopDown >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1977 | while (goDown(it)) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:537:9: required from ‘int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool, const DFIOptions&) [with TPredHull = PredMinSupp; TPred = PredEmerging; TAlphabet = seqan::SimpleType; TParamPredHull = double; TParamPred = double; TFileNames = std::vector >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 537 | goBegin(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:855:65: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 855 | case 1: return runDFI (getArgumentValues(parser, 0), options.minSupp, options.growthRate, options.maximal, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:448:111: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 448 | *(saBeg + (*(boundBeg + ordValue(*(itText + getSeqOffset(lPos)))))++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:451:82: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 451 | *(saBeg + index.sentinelBound++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In instantiation of ‘TSize seqan::_sortWotdBucket(Index, IndexWotd > >&, TBeginPos, TEndPos, TSize) [with TText = String, Alloc<> >; TSpec = Owner<>; TPredHull = PredMinSupp; TPred = PredEmerging; TBeginPos = long unsigned int; TEndPos = long unsigned int; TSize = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:1871:32: required from ‘typename seqan::Size > >::Type seqan::_wotdEvaluate(const Iter >, VSTree >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = Dfi; TSpec = TopDown >; typename Size > >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1871 | TSize size = _sortWotdBucket( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^ 1872 | index, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~ 1873 | value(it).range.i1, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~ 1874 | w1 & index.BITMASK1, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~ 1875 | repLength(it)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:800:34: required from ‘bool seqan::_goDown(Iter >, VSTree > >&, VSTreeIteratorTraits) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = Dfi; TSpec = ParentLinks; TDfsOrder = Preorder_; THideEmptyEdges = True]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 800 | TSize childNode = _wotdEvaluate(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2296:14: required from ‘bool seqan::goDown(Iter > >&) [with TIndex = Index, Alloc<> >, Owner<> >, IndexWotd > >; TSpec = ParentLinks]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2296 | if (_goDown(it, typename GetVSTreeIteratorTraits< Iter > > >::Type())) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:1977:17: required from ‘void seqan::goBegin(Iter, VSTree >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = IndexWotd >; TSpec = TopDown >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1977 | while (goDown(it)) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:537:9: required from ‘int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool, const DFIOptions&) [with TPredHull = PredMinSupp; TPred = PredEmerging; TAlphabet = seqan::SimpleType; TParamPredHull = double; TParamPred = double; TFileNames = std::vector >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 537 | goBegin(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:856:59: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 856 | case 2: return runDFI (getArgumentValues(parser, 0), options.minSupp, options.growthRate, options.maximal, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:448:111: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 448 | *(saBeg + (*(boundBeg + ordValue(*(itText + getSeqOffset(lPos)))))++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:451:82: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 451 | *(saBeg + index.sentinelBound++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In instantiation of ‘TSize seqan::_sortWotdBucket(Index, IndexWotd > >&, TBeginPos, TEndPos, TSize) [with TText = String; TSpec = Owner<>; TPredHull = PredMinAllSupp; TPred = PredEntropy; TBeginPos = long unsigned int; TEndPos = long unsigned int; TSize = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:1871:32: required from ‘typename seqan::Size > >::Type seqan::_wotdEvaluate(const Iter >, VSTree >&) [with TText = StringSet, Owner<> >; TIndexSpec = Dfi; TSpec = TopDown >; typename Size > >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1871 | TSize size = _sortWotdBucket( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^ 1872 | index, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~ 1873 | value(it).range.i1, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~ 1874 | w1 & index.BITMASK1, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~ 1875 | repLength(it)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:800:34: required from ‘bool seqan::_goDown(Iter >, VSTree > >&, VSTreeIteratorTraits) [with TText = StringSet, Owner<> >; TIndexSpec = Dfi; TSpec = ParentLinks; TDfsOrder = Preorder_; THideEmptyEdges = True]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 800 | TSize childNode = _wotdEvaluate(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2296:14: required from ‘bool seqan::goDown(Iter > >&) [with TIndex = Index, Owner<> >, IndexWotd > >; TSpec = ParentLinks]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2296 | if (_goDown(it, typename GetVSTreeIteratorTraits< Iter > > >::Type())) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:1977:17: required from ‘void seqan::goBegin(Iter, VSTree >&) [with TText = StringSet, Owner<> >; TIndexSpec = IndexWotd >; TSpec = TopDown >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1977 | while (goDown(it)) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:537:9: required from ‘int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool, const DFIOptions&) [with TPredHull = PredMinAllSupp; TPred = PredEntropy; TAlphabet = unsigned char; TParamPredHull = double; TParamPred = double; TFileNames = std::vector >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 537 | goBegin(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:861:71: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 861 | case 0: return runDFI (getArgumentValues(parser, 0), options.minSupp, options.entropy, options.maximal, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:448:111: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 448 | *(saBeg + (*(boundBeg + ordValue(*(itText + getSeqOffset(lPos)))))++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:451:82: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 451 | *(saBeg + index.sentinelBound++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In instantiation of ‘TSize seqan::_sortWotdBucket(Index, IndexWotd > >&, TBeginPos, TEndPos, TSize) [with TText = String, Alloc<> >; TSpec = Owner<>; TPredHull = PredMinAllSupp; TPred = PredEntropy; TBeginPos = long unsigned int; TEndPos = long unsigned int; TSize = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:1871:32: required from ‘typename seqan::Size > >::Type seqan::_wotdEvaluate(const Iter >, VSTree >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = Dfi; TSpec = TopDown >; typename Size > >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1871 | TSize size = _sortWotdBucket( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^ 1872 | index, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~ 1873 | value(it).range.i1, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~ 1874 | w1 & index.BITMASK1, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~ 1875 | repLength(it)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:800:34: required from ‘bool seqan::_goDown(Iter >, VSTree > >&, VSTreeIteratorTraits) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = Dfi; TSpec = ParentLinks; TDfsOrder = Preorder_; THideEmptyEdges = True]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 800 | TSize childNode = _wotdEvaluate(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2296:14: required from ‘bool seqan::goDown(Iter > >&) [with TIndex = Index, Alloc<> >, Owner<> >, IndexWotd > >; TSpec = ParentLinks]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2296 | if (_goDown(it, typename GetVSTreeIteratorTraits< Iter > > >::Type())) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:1977:17: required from ‘void seqan::goBegin(Iter, VSTree >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = IndexWotd >; TSpec = TopDown >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1977 | while (goDown(it)) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:537:9: required from ‘int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool, const DFIOptions&) [with TPredHull = PredMinAllSupp; TPred = PredEntropy; TAlphabet = seqan::SimpleType; TParamPredHull = double; TParamPred = double; TFileNames = std::vector >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 537 | goBegin(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:862:67: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 862 | case 1: return runDFI (getArgumentValues(parser, 0), options.minSupp, options.entropy, options.maximal, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:448:111: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 448 | *(saBeg + (*(boundBeg + ordValue(*(itText + getSeqOffset(lPos)))))++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:451:82: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 451 | *(saBeg + index.sentinelBound++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In instantiation of ‘TSize seqan::_sortWotdBucket(Index, IndexWotd > >&, TBeginPos, TEndPos, TSize) [with TText = String, Alloc<> >; TSpec = Owner<>; TPredHull = PredMinAllSupp; TPred = PredEntropy; TBeginPos = long unsigned int; TEndPos = long unsigned int; TSize = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:1871:32: required from ‘typename seqan::Size > >::Type seqan::_wotdEvaluate(const Iter >, VSTree >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = Dfi; TSpec = TopDown >; typename Size > >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1871 | TSize size = _sortWotdBucket( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^ 1872 | index, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~ 1873 | value(it).range.i1, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~ 1874 | w1 & index.BITMASK1, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~ 1875 | repLength(it)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:800:34: required from ‘bool seqan::_goDown(Iter >, VSTree > >&, VSTreeIteratorTraits) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = Dfi; TSpec = ParentLinks; TDfsOrder = Preorder_; THideEmptyEdges = True]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 800 | TSize childNode = _wotdEvaluate(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2296:14: required from ‘bool seqan::goDown(Iter > >&) [with TIndex = Index, Alloc<> >, Owner<> >, IndexWotd > >; TSpec = ParentLinks]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2296 | if (_goDown(it, typename GetVSTreeIteratorTraits< Iter > > >::Type())) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:1977:17: required from ‘void seqan::goBegin(Iter, VSTree >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = IndexWotd >; TSpec = TopDown >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1977 | while (goDown(it)) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:537:9: required from ‘int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool, const DFIOptions&) [with TPredHull = PredMinAllSupp; TPred = PredEntropy; TAlphabet = seqan::SimpleType; TParamPredHull = double; TParamPred = double; TFileNames = std::vector >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 537 | goBegin(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:863:61: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 863 | case 2: return runDFI (getArgumentValues(parser, 0), options.minSupp, options.entropy, options.maximal, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:448:111: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 448 | *(saBeg + (*(boundBeg + ordValue(*(itText + getSeqOffset(lPos)))))++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:451:82: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 451 | *(saBeg + index.sentinelBound++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In instantiation of ‘typename seqan::Size, seqan::IndexWotd > > >::Type seqan::_sortFirstWotdBucket(Index, IndexWotd > >&) [with TText = String; TSpec = Owner<>; TPredHull = PredMinFreq; TPred = PredMaxFreq; typename Size, IndexWotd > > >::Type = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:2021:31: required from ‘void seqan::_wotdCreateFirstLevel(Index >&) [with TText = StringSet, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2021 | size = _sortFirstWotdBucket(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:615:24: required from ‘bool seqan::indexCreate(Index > >&, WotdDir, Default) [with TText = StringSet, Owner<> >; TPredHull = PredMinFreq; TPred = PredMaxFreq; WotdDir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 615 | _wotdCreateFirstLevel(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:363:15: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 363 | indexRequire(index, WotdDir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:536:8: required from ‘int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool, const DFIOptions&) [with TPredHull = PredMinFreq; TPred = PredMaxFreq; TAlphabet = unsigned char; TParamPredHull = seqan::String >; TParamPred = seqan::String >; TFileNames = std::vector >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 536 | TIter it(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:847:68: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 847 | case 0: return runDFI (getArgumentValues(parser, 0), options.minFreq, options.maxFreq, options.maximal, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:302:66: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 302 | *(saBeg + (*(boundBeg + ord))++) = localPos; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In instantiation of ‘TSize seqan::_sortWotdBucket(Index, IndexWotd > >&, TBeginPos, TEndPos, TSize) [with TText = String; TSpec = Owner<>; TPredHull = PredMinFreq; TPred = PredMaxFreq; TBeginPos = int; TEndPos = long unsigned int; TSize = int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:2024:26: required from ‘void seqan::_wotdCreateFirstLevel(Index >&) [with TText = StringSet, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2024 | size = _sortWotdBucket(index, 0, length(indexSA(index)), 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:615:24: required from ‘bool seqan::indexCreate(Index > >&, WotdDir, Default) [with TText = StringSet, Owner<> >; TPredHull = PredMinFreq; TPred = PredMaxFreq; WotdDir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 615 | _wotdCreateFirstLevel(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:363:15: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 363 | indexRequire(index, WotdDir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:536:8: required from ‘int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool, const DFIOptions&) [with TPredHull = PredMinFreq; TPred = PredMaxFreq; TAlphabet = unsigned char; TParamPredHull = seqan::String >; TParamPred = seqan::String >; TFileNames = std::vector >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 536 | TIter it(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:847:68: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 847 | case 0: return runDFI (getArgumentValues(parser, 0), options.minFreq, options.maxFreq, options.maximal, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:448:111: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 448 | *(saBeg + (*(boundBeg + ordValue(*(itText + getSeqOffset(lPos)))))++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:451:82: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 451 | *(saBeg + index.sentinelBound++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In instantiation of ‘typename seqan::Size, seqan::IndexWotd > > >::Type seqan::_sortFirstWotdBucket(Index, IndexWotd > >&) [with TText = String, Alloc<> >; TSpec = Owner<>; TPredHull = PredMinFreq; TPred = PredMaxFreq; typename Size, IndexWotd > > >::Type = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:2021:31: required from ‘void seqan::_wotdCreateFirstLevel(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2021 | size = _sortFirstWotdBucket(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:615:24: required from ‘bool seqan::indexCreate(Index > >&, WotdDir, Default) [with TText = StringSet, Alloc<> >, Owner<> >; TPredHull = PredMinFreq; TPred = PredMaxFreq; WotdDir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 615 | _wotdCreateFirstLevel(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:363:15: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 363 | indexRequire(index, WotdDir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:536:8: required from ‘int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool, const DFIOptions&) [with TPredHull = PredMinFreq; TPred = PredMaxFreq; TAlphabet = seqan::SimpleType; TParamPredHull = seqan::String >; TParamPred = seqan::String >; TFileNames = std::vector >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 536 | TIter it(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:848:64: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 848 | case 1: return runDFI (getArgumentValues(parser, 0), options.minFreq, options.maxFreq, options.maximal, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:302:66: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 302 | *(saBeg + (*(boundBeg + ord))++) = localPos; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In instantiation of ‘TSize seqan::_sortWotdBucket(Index, IndexWotd > >&, TBeginPos, TEndPos, TSize) [with TText = String, Alloc<> >; TSpec = Owner<>; TPredHull = PredMinFreq; TPred = PredMaxFreq; TBeginPos = int; TEndPos = long unsigned int; TSize = int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:2024:26: required from ‘void seqan::_wotdCreateFirstLevel(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2024 | size = _sortWotdBucket(index, 0, length(indexSA(index)), 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:615:24: required from ‘bool seqan::indexCreate(Index > >&, WotdDir, Default) [with TText = StringSet, Alloc<> >, Owner<> >; TPredHull = PredMinFreq; TPred = PredMaxFreq; WotdDir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 615 | _wotdCreateFirstLevel(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:363:15: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 363 | indexRequire(index, WotdDir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:536:8: required from ‘int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool, const DFIOptions&) [with TPredHull = PredMinFreq; TPred = PredMaxFreq; TAlphabet = seqan::SimpleType; TParamPredHull = seqan::String >; TParamPred = seqan::String >; TFileNames = std::vector >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 536 | TIter it(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:848:64: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 848 | case 1: return runDFI (getArgumentValues(parser, 0), options.minFreq, options.maxFreq, options.maximal, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:448:111: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 448 | *(saBeg + (*(boundBeg + ordValue(*(itText + getSeqOffset(lPos)))))++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:451:82: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 451 | *(saBeg + index.sentinelBound++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In instantiation of ‘typename seqan::Size, seqan::IndexWotd > > >::Type seqan::_sortFirstWotdBucket(Index, IndexWotd > >&) [with TText = String, Alloc<> >; TSpec = Owner<>; TPredHull = PredMinFreq; TPred = PredMaxFreq; typename Size, IndexWotd > > >::Type = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:2021:31: required from ‘void seqan::_wotdCreateFirstLevel(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2021 | size = _sortFirstWotdBucket(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:615:24: required from ‘bool seqan::indexCreate(Index > >&, WotdDir, Default) [with TText = StringSet, Alloc<> >, Owner<> >; TPredHull = PredMinFreq; TPred = PredMaxFreq; WotdDir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 615 | _wotdCreateFirstLevel(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:363:15: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 363 | indexRequire(index, WotdDir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:536:8: required from ‘int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool, const DFIOptions&) [with TPredHull = PredMinFreq; TPred = PredMaxFreq; TAlphabet = seqan::SimpleType; TParamPredHull = seqan::String >; TParamPred = seqan::String >; TFileNames = std::vector >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 536 | TIter it(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:849:58: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 849 | case 2: return runDFI (getArgumentValues(parser, 0), options.minFreq, options.maxFreq, options.maximal, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:302:66: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 302 | *(saBeg + (*(boundBeg + ord))++) = localPos; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In instantiation of ‘TSize seqan::_sortWotdBucket(Index, IndexWotd > >&, TBeginPos, TEndPos, TSize) [with TText = String, Alloc<> >; TSpec = Owner<>; TPredHull = PredMinFreq; TPred = PredMaxFreq; TBeginPos = int; TEndPos = long unsigned int; TSize = int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:2024:26: required from ‘void seqan::_wotdCreateFirstLevel(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2024 | size = _sortWotdBucket(index, 0, length(indexSA(index)), 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:615:24: required from ‘bool seqan::indexCreate(Index > >&, WotdDir, Default) [with TText = StringSet, Alloc<> >, Owner<> >; TPredHull = PredMinFreq; TPred = PredMaxFreq; WotdDir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 615 | _wotdCreateFirstLevel(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:363:15: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 363 | indexRequire(index, WotdDir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:536:8: required from ‘int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool, const DFIOptions&) [with TPredHull = PredMinFreq; TPred = PredMaxFreq; TAlphabet = seqan::SimpleType; TParamPredHull = seqan::String >; TParamPred = seqan::String >; TFileNames = std::vector >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 536 | TIter it(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:849:58: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 849 | case 2: return runDFI (getArgumentValues(parser, 0), options.minFreq, options.maxFreq, options.maximal, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:448:111: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 448 | *(saBeg + (*(boundBeg + ordValue(*(itText + getSeqOffset(lPos)))))++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:451:82: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 451 | *(saBeg + index.sentinelBound++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In instantiation of ‘typename seqan::Size, seqan::IndexWotd > > >::Type seqan::_sortFirstWotdBucket(Index, IndexWotd > >&) [with TText = String; TSpec = Owner<>; TPredHull = PredMinSupp; TPred = PredEmerging; typename Size, IndexWotd > > >::Type = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:2021:31: required from ‘void seqan::_wotdCreateFirstLevel(Index >&) [with TText = StringSet, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2021 | size = _sortFirstWotdBucket(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:615:24: required from ‘bool seqan::indexCreate(Index > >&, WotdDir, Default) [with TText = StringSet, Owner<> >; TPredHull = PredMinSupp; TPred = PredEmerging; WotdDir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 615 | _wotdCreateFirstLevel(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:363:15: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 363 | indexRequire(index, WotdDir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:536:8: required from ‘int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool, const DFIOptions&) [with TPredHull = PredMinSupp; TPred = PredEmerging; TAlphabet = unsigned char; TParamPredHull = double; TParamPred = double; TFileNames = std::vector >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 536 | TIter it(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:854:69: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 854 | case 0: return runDFI (getArgumentValues(parser, 0), options.minSupp, options.growthRate, options.maximal, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:302:66: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 302 | *(saBeg + (*(boundBeg + ord))++) = localPos; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In instantiation of ‘TSize seqan::_sortWotdBucket(Index, IndexWotd > >&, TBeginPos, TEndPos, TSize) [with TText = String; TSpec = Owner<>; TPredHull = PredMinSupp; TPred = PredEmerging; TBeginPos = int; TEndPos = long unsigned int; TSize = int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:2024:26: required from ‘void seqan::_wotdCreateFirstLevel(Index >&) [with TText = StringSet, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2024 | size = _sortWotdBucket(index, 0, length(indexSA(index)), 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:615:24: required from ‘bool seqan::indexCreate(Index > >&, WotdDir, Default) [with TText = StringSet, Owner<> >; TPredHull = PredMinSupp; TPred = PredEmerging; WotdDir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 615 | _wotdCreateFirstLevel(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:363:15: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 363 | indexRequire(index, WotdDir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:536:8: required from ‘int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool, const DFIOptions&) [with TPredHull = PredMinSupp; TPred = PredEmerging; TAlphabet = unsigned char; TParamPredHull = double; TParamPred = double; TFileNames = std::vector >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 536 | TIter it(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:854:69: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 854 | case 0: return runDFI (getArgumentValues(parser, 0), options.minSupp, options.growthRate, options.maximal, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:448:111: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 448 | *(saBeg + (*(boundBeg + ordValue(*(itText + getSeqOffset(lPos)))))++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:451:82: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 451 | *(saBeg + index.sentinelBound++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In instantiation of ‘typename seqan::Size, seqan::IndexWotd > > >::Type seqan::_sortFirstWotdBucket(Index, IndexWotd > >&) [with TText = String, Alloc<> >; TSpec = Owner<>; TPredHull = PredMinSupp; TPred = PredEmerging; typename Size, IndexWotd > > >::Type = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:2021:31: required from ‘void seqan::_wotdCreateFirstLevel(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2021 | size = _sortFirstWotdBucket(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:615:24: required from ‘bool seqan::indexCreate(Index > >&, WotdDir, Default) [with TText = StringSet, Alloc<> >, Owner<> >; TPredHull = PredMinSupp; TPred = PredEmerging; WotdDir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 615 | _wotdCreateFirstLevel(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:363:15: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 363 | indexRequire(index, WotdDir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:536:8: required from ‘int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool, const DFIOptions&) [with TPredHull = PredMinSupp; TPred = PredEmerging; TAlphabet = seqan::SimpleType; TParamPredHull = double; TParamPred = double; TFileNames = std::vector >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 536 | TIter it(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:855:65: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 855 | case 1: return runDFI (getArgumentValues(parser, 0), options.minSupp, options.growthRate, options.maximal, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:302:66: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 302 | *(saBeg + (*(boundBeg + ord))++) = localPos; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In instantiation of ‘TSize seqan::_sortWotdBucket(Index, IndexWotd > >&, TBeginPos, TEndPos, TSize) [with TText = String, Alloc<> >; TSpec = Owner<>; TPredHull = PredMinSupp; TPred = PredEmerging; TBeginPos = int; TEndPos = long unsigned int; TSize = int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:2024:26: required from ‘void seqan::_wotdCreateFirstLevel(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2024 | size = _sortWotdBucket(index, 0, length(indexSA(index)), 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:615:24: required from ‘bool seqan::indexCreate(Index > >&, WotdDir, Default) [with TText = StringSet, Alloc<> >, Owner<> >; TPredHull = PredMinSupp; TPred = PredEmerging; WotdDir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 615 | _wotdCreateFirstLevel(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:363:15: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 363 | indexRequire(index, WotdDir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:536:8: required from ‘int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool, const DFIOptions&) [with TPredHull = PredMinSupp; TPred = PredEmerging; TAlphabet = seqan::SimpleType; TParamPredHull = double; TParamPred = double; TFileNames = std::vector >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 536 | TIter it(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:855:65: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 855 | case 1: return runDFI (getArgumentValues(parser, 0), options.minSupp, options.growthRate, options.maximal, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:448:111: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 448 | *(saBeg + (*(boundBeg + ordValue(*(itText + getSeqOffset(lPos)))))++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:451:82: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 451 | *(saBeg + index.sentinelBound++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In instantiation of ‘typename seqan::Size, seqan::IndexWotd > > >::Type seqan::_sortFirstWotdBucket(Index, IndexWotd > >&) [with TText = String, Alloc<> >; TSpec = Owner<>; TPredHull = PredMinSupp; TPred = PredEmerging; typename Size, IndexWotd > > >::Type = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:2021:31: required from ‘void seqan::_wotdCreateFirstLevel(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2021 | size = _sortFirstWotdBucket(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:615:24: required from ‘bool seqan::indexCreate(Index > >&, WotdDir, Default) [with TText = StringSet, Alloc<> >, Owner<> >; TPredHull = PredMinSupp; TPred = PredEmerging; WotdDir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 615 | _wotdCreateFirstLevel(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:363:15: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 363 | indexRequire(index, WotdDir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:536:8: required from ‘int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool, const DFIOptions&) [with TPredHull = PredMinSupp; TPred = PredEmerging; TAlphabet = seqan::SimpleType; TParamPredHull = double; TParamPred = double; TFileNames = std::vector >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 536 | TIter it(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:856:59: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 856 | case 2: return runDFI (getArgumentValues(parser, 0), options.minSupp, options.growthRate, options.maximal, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:302:66: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 302 | *(saBeg + (*(boundBeg + ord))++) = localPos; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In instantiation of ‘TSize seqan::_sortWotdBucket(Index, IndexWotd > >&, TBeginPos, TEndPos, TSize) [with TText = String, Alloc<> >; TSpec = Owner<>; TPredHull = PredMinSupp; TPred = PredEmerging; TBeginPos = int; TEndPos = long unsigned int; TSize = int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:2024:26: required from ‘void seqan::_wotdCreateFirstLevel(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2024 | size = _sortWotdBucket(index, 0, length(indexSA(index)), 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:615:24: required from ‘bool seqan::indexCreate(Index > >&, WotdDir, Default) [with TText = StringSet, Alloc<> >, Owner<> >; TPredHull = PredMinSupp; TPred = PredEmerging; WotdDir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 615 | _wotdCreateFirstLevel(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:363:15: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 363 | indexRequire(index, WotdDir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:536:8: required from ‘int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool, const DFIOptions&) [with TPredHull = PredMinSupp; TPred = PredEmerging; TAlphabet = seqan::SimpleType; TParamPredHull = double; TParamPred = double; TFileNames = std::vector >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 536 | TIter it(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:856:59: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 856 | case 2: return runDFI (getArgumentValues(parser, 0), options.minSupp, options.growthRate, options.maximal, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:448:111: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 448 | *(saBeg + (*(boundBeg + ordValue(*(itText + getSeqOffset(lPos)))))++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:451:82: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 451 | *(saBeg + index.sentinelBound++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In instantiation of ‘typename seqan::Size, seqan::IndexWotd > > >::Type seqan::_sortFirstWotdBucket(Index, IndexWotd > >&) [with TText = String; TSpec = Owner<>; TPredHull = PredMinAllSupp; TPred = PredEntropy; typename Size, IndexWotd > > >::Type = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:2021:31: required from ‘void seqan::_wotdCreateFirstLevel(Index >&) [with TText = StringSet, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2021 | size = _sortFirstWotdBucket(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:615:24: required from ‘bool seqan::indexCreate(Index > >&, WotdDir, Default) [with TText = StringSet, Owner<> >; TPredHull = PredMinAllSupp; TPred = PredEntropy; WotdDir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 615 | _wotdCreateFirstLevel(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:363:15: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 363 | indexRequire(index, WotdDir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:536:8: required from ‘int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool, const DFIOptions&) [with TPredHull = PredMinAllSupp; TPred = PredEntropy; TAlphabet = unsigned char; TParamPredHull = double; TParamPred = double; TFileNames = std::vector >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 536 | TIter it(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:861:71: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 861 | case 0: return runDFI (getArgumentValues(parser, 0), options.minSupp, options.entropy, options.maximal, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:302:66: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 302 | *(saBeg + (*(boundBeg + ord))++) = localPos; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In instantiation of ‘TSize seqan::_sortWotdBucket(Index, IndexWotd > >&, TBeginPos, TEndPos, TSize) [with TText = String; TSpec = Owner<>; TPredHull = PredMinAllSupp; TPred = PredEntropy; TBeginPos = int; TEndPos = long unsigned int; TSize = int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:2024:26: required from ‘void seqan::_wotdCreateFirstLevel(Index >&) [with TText = StringSet, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2024 | size = _sortWotdBucket(index, 0, length(indexSA(index)), 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:615:24: required from ‘bool seqan::indexCreate(Index > >&, WotdDir, Default) [with TText = StringSet, Owner<> >; TPredHull = PredMinAllSupp; TPred = PredEntropy; WotdDir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 615 | _wotdCreateFirstLevel(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:363:15: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 363 | indexRequire(index, WotdDir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:536:8: required from ‘int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool, const DFIOptions&) [with TPredHull = PredMinAllSupp; TPred = PredEntropy; TAlphabet = unsigned char; TParamPredHull = double; TParamPred = double; TFileNames = std::vector >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 536 | TIter it(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:861:71: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 861 | case 0: return runDFI (getArgumentValues(parser, 0), options.minSupp, options.entropy, options.maximal, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:448:111: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 448 | *(saBeg + (*(boundBeg + ordValue(*(itText + getSeqOffset(lPos)))))++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:451:82: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 451 | *(saBeg + index.sentinelBound++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In instantiation of ‘typename seqan::Size, seqan::IndexWotd > > >::Type seqan::_sortFirstWotdBucket(Index, IndexWotd > >&) [with TText = String, Alloc<> >; TSpec = Owner<>; TPredHull = PredMinAllSupp; TPred = PredEntropy; typename Size, IndexWotd > > >::Type = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:2021:31: required from ‘void seqan::_wotdCreateFirstLevel(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2021 | size = _sortFirstWotdBucket(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:615:24: required from ‘bool seqan::indexCreate(Index > >&, WotdDir, Default) [with TText = StringSet, Alloc<> >, Owner<> >; TPredHull = PredMinAllSupp; TPred = PredEntropy; WotdDir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 615 | _wotdCreateFirstLevel(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:363:15: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 363 | indexRequire(index, WotdDir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:536:8: required from ‘int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool, const DFIOptions&) [with TPredHull = PredMinAllSupp; TPred = PredEntropy; TAlphabet = seqan::SimpleType; TParamPredHull = double; TParamPred = double; TFileNames = std::vector >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 536 | TIter it(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:862:67: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 862 | case 1: return runDFI (getArgumentValues(parser, 0), options.minSupp, options.entropy, options.maximal, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:302:66: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 302 | *(saBeg + (*(boundBeg + ord))++) = localPos; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In instantiation of ‘TSize seqan::_sortWotdBucket(Index, IndexWotd > >&, TBeginPos, TEndPos, TSize) [with TText = String, Alloc<> >; TSpec = Owner<>; TPredHull = PredMinAllSupp; TPred = PredEntropy; TBeginPos = int; TEndPos = long unsigned int; TSize = int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:2024:26: required from ‘void seqan::_wotdCreateFirstLevel(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2024 | size = _sortWotdBucket(index, 0, length(indexSA(index)), 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:615:24: required from ‘bool seqan::indexCreate(Index > >&, WotdDir, Default) [with TText = StringSet, Alloc<> >, Owner<> >; TPredHull = PredMinAllSupp; TPred = PredEntropy; WotdDir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 615 | _wotdCreateFirstLevel(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:363:15: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 363 | indexRequire(index, WotdDir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:536:8: required from ‘int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool, const DFIOptions&) [with TPredHull = PredMinAllSupp; TPred = PredEntropy; TAlphabet = seqan::SimpleType; TParamPredHull = double; TParamPred = double; TFileNames = std::vector >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 536 | TIter it(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:862:67: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 862 | case 1: return runDFI (getArgumentValues(parser, 0), options.minSupp, options.entropy, options.maximal, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:448:111: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 448 | *(saBeg + (*(boundBeg + ordValue(*(itText + getSeqOffset(lPos)))))++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:451:82: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 451 | *(saBeg + index.sentinelBound++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In instantiation of ‘typename seqan::Size, seqan::IndexWotd > > >::Type seqan::_sortFirstWotdBucket(Index, IndexWotd > >&) [with TText = String, Alloc<> >; TSpec = Owner<>; TPredHull = PredMinAllSupp; TPred = PredEntropy; typename Size, IndexWotd > > >::Type = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:2021:31: required from ‘void seqan::_wotdCreateFirstLevel(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2021 | size = _sortFirstWotdBucket(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:615:24: required from ‘bool seqan::indexCreate(Index > >&, WotdDir, Default) [with TText = StringSet, Alloc<> >, Owner<> >; TPredHull = PredMinAllSupp; TPred = PredEntropy; WotdDir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 615 | _wotdCreateFirstLevel(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:363:15: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 363 | indexRequire(index, WotdDir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:536:8: required from ‘int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool, const DFIOptions&) [with TPredHull = PredMinAllSupp; TPred = PredEntropy; TAlphabet = seqan::SimpleType; TParamPredHull = double; TParamPred = double; TFileNames = std::vector >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 536 | TIter it(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:863:61: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 863 | case 2: return runDFI (getArgumentValues(parser, 0), options.minSupp, options.entropy, options.maximal, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:302:66: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 302 | *(saBeg + (*(boundBeg + ord))++) = localPos; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In instantiation of ‘TSize seqan::_sortWotdBucket(Index, IndexWotd > >&, TBeginPos, TEndPos, TSize) [with TText = String, Alloc<> >; TSpec = Owner<>; TPredHull = PredMinAllSupp; TPred = PredEntropy; TBeginPos = int; TEndPos = long unsigned int; TSize = int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:2024:26: required from ‘void seqan::_wotdCreateFirstLevel(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2024 | size = _sortWotdBucket(index, 0, length(indexSA(index)), 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:615:24: required from ‘bool seqan::indexCreate(Index > >&, WotdDir, Default) [with TText = StringSet, Alloc<> >, Owner<> >; TPredHull = PredMinAllSupp; TPred = PredEntropy; WotdDir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 615 | _wotdCreateFirstLevel(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexWotd >; TFibre = FibreDir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:363:15: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = Dfi]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 363 | indexRequire(index, WotdDir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexWotd > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:536:8: required from ‘int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool, const DFIOptions&) [with TPredHull = PredMinAllSupp; TPred = PredEntropy; TAlphabet = seqan::SimpleType; TParamPredHull = double; TParamPred = double; TFileNames = std::vector >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 536 | TIter it(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:863:61: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 863 | case 2: return runDFI (getArgumentValues(parser, 0), options.minSupp, options.entropy, options.maximal, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:448:111: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 448 | *(saBeg + (*(boundBeg + ordValue(*(itText + getSeqOffset(lPos)))))++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:451:82: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 451 | *(saBeg + index.sentinelBound++) = *itSA; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18: required from ‘typename seqan::Size::Type seqan::resize(T&, TSize) [with T = String, Alloc<> >; TSize = long int; typename Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2143 | return resize(me, new_length, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/file_format_mmap.h:793:9: required from ‘void seqan::assignSeq(TSeq&, const TFastaSeq&, Fastq) [with TSeq = String, Alloc<> >; TFastaSeq = Segment >, InfixSegment>; Fastq = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 793 | resize(dst, itEnd - it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/file_format_mmap.h:1423:13: required from ‘void seqan::assignSeq(TSeq&, const TFileSeq&, const TagSelector&) [with TSeq = String, Alloc<> >; TFileSeq = Segment >, InfixSegment>; TTagList = TagList, TagList, TagList > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1423 | assignSeq(dst, seq, TFormatTag()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:257:13: required from ‘bool loadDatasets(TSequences&, const TFileNames&, TDatasets&) [with TSequences = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TFileNames = std::vector >; TDatasets = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 257 | assignSeq(seqs[ds[s] + i], multiFasta[i], format); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:504:19: required from ‘int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool, const DFIOptions&) [with TPredHull = PredMinFreq; TPred = PredMaxFreq; TAlphabet = seqan::SimpleType; TParamPredHull = seqan::String >; TParamPred = seqan::String >; TFileNames = std::vector >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 504 | if (!loadDatasets(mySet, fileNames, ds)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:848:64: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 848 | case 1: return runDFI (getArgumentValues(parser, 0), options.minFreq, options.maxFreq, options.maximal, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18: required from ‘typename seqan::Size::Type seqan::resize(T&, TSize) [with T = String, Alloc<> >; TSize = long int; typename Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2143 | return resize(me, new_length, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/file_format_mmap.h:793:9: required from ‘void seqan::assignSeq(TSeq&, const TFastaSeq&, Fastq) [with TSeq = String, Alloc<> >; TFastaSeq = Segment >, InfixSegment>; Fastq = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 793 | resize(dst, itEnd - it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/file_format_mmap.h:1423:13: required from ‘void seqan::assignSeq(TSeq&, const TFileSeq&, const TagSelector&) [with TSeq = String, Alloc<> >; TFileSeq = Segment >, InfixSegment>; TTagList = TagList, TagList, TagList > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1423 | assignSeq(dst, seq, TFormatTag()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:257:13: required from ‘bool loadDatasets(TSequences&, const TFileNames&, TDatasets&) [with TSequences = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TFileNames = std::vector >; TDatasets = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 257 | assignSeq(seqs[ds[s] + i], multiFasta[i], format); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:504:19: required from ‘int runDFI(const TFileNames&, TParamPredHull, TParamPred, bool, const DFIOptions&) [with TPredHull = PredMinFreq; TPred = PredMaxFreq; TAlphabet = seqan::SimpleType; TParamPredHull = seqan::String >; TParamPred = seqan::String >; TFileNames = std::vector >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 504 | if (!loadDatasets(mySet, fileNames, ds)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:849:58: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 849 | case 2: return runDFI (getArgumentValues(parser, 0), options.minFreq, options.maxFreq, options.maximal, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp: In function ‘int main(int, const char**)’: /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:845:25: warning: this statement may fall through [-Wimplicit-fallthrough=] 845 | switch (options.alphabet) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:851:17: note: here 851 | case 1: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:852:25: warning: this statement may fall through [-Wimplicit-fallthrough=] 852 | switch (options.alphabet) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi/dfi.cpp:858:17: note: here 858 | case 2: | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ [ 1%] Linking CXX executable ../../../bin/dfi cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/dfi && /usr/bin/cmake -E cmake_link_script CMakeFiles/dfi.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/dfi.dir/dfi.cpp.o -o ../../../bin/dfi -lrt In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toHtml’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/tool_doc.h:284:34: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551568’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘_toHtml’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 1%] Built target dfi make -f core/apps/fiona/CMakeFiles/compute_gain.dir/build.make core/apps/fiona/CMakeFiles/compute_gain.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/fiona /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/fiona/CMakeFiles/compute_gain.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f core/apps/fiona/CMakeFiles/compute_gain.dir/build.make core/apps/fiona/CMakeFiles/compute_gain.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 3%] Building CXX object core/apps/fiona/CMakeFiles/compute_gain.dir/compute_gain.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/fiona && /usr/bin/g++ -DSEQAN_DATE=\"\" -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT core/apps/fiona/CMakeFiles/compute_gain.dir/compute_gain.cpp.o -MF CMakeFiles/compute_gain.dir/compute_gain.cpp.o.d -o CMakeFiles/compute_gain.dir/compute_gain.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/compute_gain.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/compute_gain.cpp:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/compute_gain.cpp:2: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/stream.h:86, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/score.h:42, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:45, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/fai_index.h:40, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:83, from /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/compute_gain.cpp:10: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/compute_gain.cpp: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = Stats*; TParam = Stats]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Stats*; TParam = Stats]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:605:23: required from ‘void seqan::_arrayConstructCopyDefault(TSource1, TSource2, TTarget) [with TTarget = Stats*; TSource1 = Stats*; TSource2 = Stats*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 605 | valueConstruct(target_begin, getValue(source_begin)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1420:31: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, False) [with TValueSource = Stats; TValueTarget = Stats]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1420 | _arrayConstructCopyDefault(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = Stats; TValueTarget = Stats]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = Stats; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = Stats; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45: required from ‘static typename seqan::Size::Type seqan::_Resize_String::resize_(T&, typename seqan::Size::Type) [with T = seqan::String; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1887 | TSize new_capacity = reserve(me, new_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50: required from ‘typename seqan::Size >::Type seqan::resize(String&, TSize, Tag) [with TValue = Stats; TSpec = Alloc<>; TSize = int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1952 | return _Resize_String >::resize_(me, new_length); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18: required from ‘typename seqan::Size::Type seqan::resize(T&, TSize) [with T = String; TSize = int; typename Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 2143 | return resize(me, new_length, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/compute_gain.cpp:843:11: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 843 | resize(stats, options.numThreads); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/compute_gain.cpp:97:8: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> > >::Align(const seqan::Align, seqan::Alloc<> > >&)’ is deprecated [-Wdeprecated-copy] 97 | struct Stats | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:89: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> > >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/compute_gain.cpp:97:8: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> > >::Align(const seqan::Align, seqan::Alloc<> > >&)’ is deprecated [-Wdeprecated-copy] 97 | struct Stats | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> > >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58, from /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/compute_gain.cpp:5: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: synthesized method ‘Stats::Stats(const Stats&)’ first required here 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1475:37: required from ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> > >; TValue = const seqan::String, seqan::Alloc<> >; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 1475 | typename Value::Type temp_copy(_value); //temp copy because resize could invalidate _value /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = String, Alloc<> >; TTargetSpec = Alloc<>; TValue = String, Alloc<> >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_owner.h:146:16: required from ‘void seqan::appendValue(StringSet >&, const TString2&, Tag) [with TString = String, Alloc<> >; TString2 = String, Alloc<> >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 146 | appendValue(me.strings, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = StringSet, Alloc<> > >; TValue = String, Alloc<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/read_fasta_fastq.h:1032:20: required from ‘typename seqan::EnableIf::Type, seqan::Tag >::Type, typename seqan::IsSameType::Type, seqan::Tag >::Type>::Type, int>::Type seqan::read2(StringSet&, StringSet&, RecordReader >&, const TTag&) [with TIdString = String >; TIdSpec = Owner<>; TSeqString = String, Alloc<> >; TSeqSpec = Owner<>; TFile = std::basic_fstream; TSpec = void; TTag = Tag; typename EnableIf::Type, Tag >::Type, typename IsSameType::Type, Tag >::Type>::Type, int>::Type = int; typename Or::Type, Tag >::Type, typename IsSameType::Type, Tag >::Type>::Type = True; typename IsSameType::Type, Tag >::Type = True; typename RemoveConst_::Type = Tag; typename IsSameType::Type, Tag >::Type = False]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 1032 | appendValue(sequences, seq); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/compute_gain.cpp:809:14: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 809 | if (read2(ids, seqs, readerGenome, Fasta()) != 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 3%] Linking CXX executable ../../../bin/compute_gain cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/fiona && /usr/bin/cmake -E cmake_link_script CMakeFiles/compute_gain.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/compute_gain.dir/compute_gain.cpp.o -o ../../../bin/compute_gain -lrt -L/usr/lib64 -lz In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 3%] Built target compute_gain make -f core/apps/fiona/CMakeFiles/fiona.dir/build.make core/apps/fiona/CMakeFiles/fiona.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/fiona /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/fiona/CMakeFiles/fiona.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f core/apps/fiona/CMakeFiles/fiona.dir/build.make core/apps/fiona/CMakeFiles/fiona.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 4%] Building CXX object core/apps/fiona/CMakeFiles/fiona.dir/fiona.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/fiona && /usr/bin/g++ -DSEQAN_DATE=\"\" -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT core/apps/fiona/CMakeFiles/fiona.dir/fiona.cpp.o -MF CMakeFiles/fiona.dir/fiona.cpp.o.d -o CMakeFiles/fiona.dir/fiona.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:40, from /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:119: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:103: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:45:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:54:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:63:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 63 | struct filterI3 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:401:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 401 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:507:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 507 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:78: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:42:48: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public ::std::binary_function < PageBucket, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:57:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:257:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 257 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:372:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 372 | struct insertBucket : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:44: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_set.h:373:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:404:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 404 | public::std::binary_function // functor for operator> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:744:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 744 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:760:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 760 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:80: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:854:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 854 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:902:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 902 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:970:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 970 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1039:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1039 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1073:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1073 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1121:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1121 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2093:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2093 | struct _qgramComp : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2112:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2112 | public ::std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:46:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 46 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:85:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 85 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:96: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:98:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 98 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:112:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 112 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:127:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:144:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:154:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:99: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:110:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 110 | public ::std::binary_function < SkewDCStream, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:143:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 143 | public ::std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:100: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:99:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 99 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:118:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:132:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 132 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:154:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:175:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 175 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:185:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 185 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:103: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:57:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:97:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 97 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:141:29: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:109: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:59:42: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:164:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, KasaiOriginal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:312:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 312 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:313:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 313 | LCP[isa - 1] = h; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:379:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 379 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:380:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 380 | LCP[i] = h | mark; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const StringSet&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:483:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 483 | for(TSize hMax = _min(getValueI2((TPair)dec), n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:484:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 484 | LCP[i] = h | mark; | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:113: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h:144:50: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:585:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 585 | public ::std::binary_function< Pair, Pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:128: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In function ‘void seqan::_storeWotdChildren(Index > >&, TSize, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:504:27: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 504 | } else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:506:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 506 | for (TDirSize d = index.sentinelBound - index.sentinelOcc; d != index.sentinelBound; ++d) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:136: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h:149:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 149 | struct RepeatLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:157: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h: In function ‘typename seqan::Iterator >::Type seqan::_upperBoundLcpe(TText&, TSA&, SearchTreeIterator, TQuery&, TDiff_, TDiff_)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1498:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1498 | for(; i && ordEqual(*t, convert(*q)); --i, ++t, ++q) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1501 | if (q == qEnd || t == tEnd || !ordGreater(*t, convert(*q))) { | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:1687:34: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1687 | struct LessOverlap : public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:1705:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1705 | struct LessPositionOverlap : public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp: In function ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag)’: /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4212:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 4212 | if (options.verbosity >= 2) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4215:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 4215 | Dna5String tmp; | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4235:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 4235 | if (options.verbosity >= 2) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4238:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 4238 | double experrreads = expectedValueTheoretical(options.expectedTheoretical, readLengthHist, options.genomeLength, options.errorrate); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4413:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 4413 | if (options.verbosity >= 2) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4416:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 4416 | if (options.errorrate != 0 && options.wovsum != 0) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4461:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 4461 | if (options.verbosity >= 1) | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:58, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:116: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/profiling.h:81:41: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 81 | #define SEQAN_PROTIMESTART(a) _proFloat a = sysTime() | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4463:9: note: in expansion of macro ‘SEQAN_PROTIMESTART’ 4463 | SEQAN_PROTIMESTART(search); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4684:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 4684 | for (unsigned i = 0; i < length(store.readSeqStore); ++i) | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4689:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 4689 | TFionaQgramIndex qgramIndex(prefixes); | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4852:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 4852 | if (options.verbosity >= 1) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4854:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 4854 | if (inTerm && options.verbosity >= 2) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5027:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 5027 | if (options.verbosity >= 1) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5032:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 5032 | resize(store.readSeqStore, readCount); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp: In function ‘int main(int, const char**)’: /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5479:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 5479 | if (options.verbosity >= 1) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5483:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 5483 | bool autoCycles = (options.cycles == 0 || options.cycles == 1000); | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5486:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 5486 | if (options.verbosity >= 1) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/profiling.h:81:41: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 81 | #define SEQAN_PROTIMESTART(a) _proFloat a = sysTime() | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5489:9: note: in expansion of macro ‘SEQAN_PROTIMESTART’ 5489 | SEQAN_PROTIMESTART(correction); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5495:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 5495 | if (options.verbosity >= 1) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5497:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 5497 | if (!loadReadsNoNames(store, options.inputFilename, options)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5561:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 5561 | if (options.verbosity >= 1) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5563:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 5563 | options.autolevel = (options.fromLevel <= 1); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5671:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 5671 | if (res != 0) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5674:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 5674 | if (options.verbosity >= 1 && options.cycles > 1) | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:132: /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/index_qgram_parallel.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints, Tag) [with TSA = String >, Alloc<> >; TString = Segment, Alloc<> >, InfixSegment>; TSpec = Owner<>; TShape = Shape, UngappedShape<10> >; TDir = String >; TBucketMap = Nothing; TWithConstraints = True; TStepSize = long unsigned int; TParallelTag = Parallel_]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4761:30: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5674:9: note: 4761 | _qgramFillSuffixArray(indexSA(qgramIndex), indexText(qgramIndex), indexShape(qgramIndex), indexDir(qgramIndex), qgramIndex.bucketMap, getStepSize(qgramIndex), True(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5674:9: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5674:9: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5674:9: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/index_qgram_parallel.h:438:61: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 438 | sa[atomicPostInc(*bktPtr, parallelTag)] = localPos; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:55, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:71: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/index_qgram_parallel.h:445:65: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 445 | sa[atomicPostInc(*bktPtr, parallelTag)] = localPos; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/index_qgram_parallel.h:472:65: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 472 | sa[atomicPostInc(*bktPtr, parallelTag)] = localPos; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:116, from /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_base.h: In instantiation of ‘void seqan::posLocalize(TResult&, const Pair&, const String&) [with TResult = Pair >; TSize = long unsigned int; TSpec = Alloc<>; T1 = unsigned int; T2 = short unsigned int; TPack = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_base.h:754:16: required from ‘typename seqan::Suffix::Type seqan::suffix(StringSet&, const TPosition&) [with TString = String, Alloc<> >; TSpec = Owner<>; TPosition = Pair >; typename Suffix::Type = Segment, Alloc<> >, SuffixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 754 | posLocalize(lPos, pos, stringSetLimits(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4918:43: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4918 | std::cerr << prefix(suffix(store.readSeqStore, front(indexSA(myIndex))), QGRAM_LENGTH) << " - "; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_base.h:699:12: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 699 | result = pos; | ~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:101: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h: In instantiation of ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Alloc<> >; TValue = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TExpand = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Segment, Alloc<> >, InfixSegment>; TTargetSpec = Alloc<>; TValue = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_owner.h:146:16: required from ‘void seqan::appendValue(StringSet >&, const TString2&, Tag) [with TString = Segment, Alloc<> >, InfixSegment>; TString2 = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 146 | appendValue(me.strings, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = StringSet, Alloc<> >, InfixSegment> >; TValue = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4686:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4686 | appendValue(prefixes, infix(store.readSeqStore[i], 0, length(store.readSeqStore[i]) - cutLength)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1475:37: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1475 | typename Value::Type temp_copy(_value); //temp copy because resize could invalidate _value | ^~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:93: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:126: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h: In instantiation of ‘void seqan::_historyClear(Iter > >&) [with TIndex = Index, Alloc<> >, Owner<> >, IndexSa<> >; TSpec = Preorder]’: /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:292:18: required from ‘void seqan::goRoot(Iter >, VSTree >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void; TSpec = TopDown<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 292 | _historyClear(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:266:10: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 266 | goRoot(*this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: warning: implicitly-declared ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ is deprecated [-Wdeprecated-copy] 2147 | it._parentDesc = value(it); | ~~~~~~~~~~~~~~~^~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:127: /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA >’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = seqan::SimpleType]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:103:8: warning: implicitly-declared ‘constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)’ is deprecated [-Wdeprecated-copy] 103 | struct VertexSA : public VertexEsa | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:125: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:290:17: note: because ‘seqan::VertexEsa’ has user-provided ‘seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]’ 290 | VertexEsa(VertexEsa const &other): | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: synthesized method ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ first required here 2147 | it._parentDesc = value(it); | ~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h: In instantiation of ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String >*>, seqan::InfixSegment>, seqan::Array<4> >; TValue = const seqan::Segment >*>, seqan::InfixSegment>; TExpand = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Segment >*>, InfixSegment>; TTargetSpec = Array<4>; TValue = Segment >*>, InfixSegment>; TExpand = TagLimit_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = String >*>, InfixSegment>, Array<4> >; TValue = Segment >*>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:3625:32: required from ‘void traverseAndSearchCorrections(TTreeIterator, TFragmentStore&, seqan::String&, seqan::String&, FionaOptions&, seqan::Tag, unsigned int, FionaResources&) [with int LOOP_LEVEL = -1; TTreeIterator = seqan::Iter, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >, seqan::VSTree > > >; TFragmentStore = seqan::FragmentStore; TCorrections = CorrectionIndelPos; TValueId = unsigned int; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: 3625 | appendValue(correctCandidates, getOccurrences(iterSibling)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4944:41: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: 4944 | traverseAndSearchCorrections<-1>(myConstrainedIterator, store, correctionList, firstCorrectionForRead, options, alg, maxReadLength, resources); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1475:37: warning: implicitly-declared ‘constexpr seqan::Segment >*>, seqan::InfixSegment>::Segment(const seqan::Segment >*>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1475 | typename Value::Type temp_copy(_value); //temp copy because resize could invalidate _value | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >*>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::Range >*>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h: In instantiation of ‘void seqan::_clear(Iter >&) [with TIndex = Index, Alloc<> >, Owner<> >, IndexSa<> >; TSpec = TopDown<>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2751:9: required from ‘void seqan::clear(Iter >&) [with TIndex = Index, Alloc<> >, Owner<> >, IndexSa<> >; TSpec = TopDown<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2751 | _clear(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:293:10: required from ‘void seqan::goRoot(Iter >, VSTree >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void; TSpec = TopDown<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 293 | clear(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:266:10: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 266 | goRoot(*this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2745:27: warning: implicitly-declared ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ is deprecated [-Wdeprecated-copy] 2745 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA >’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = seqan::SimpleType]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1481:31: required from ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Alloc<> >; TValue = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: 1481 | valueConstruct(begin(me, Standard()) + me_length, temp_copy); //??? this should be valueMoveConstruct /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Segment, Alloc<> >, InfixSegment>; TTargetSpec = Alloc<>; TValue = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_owner.h:146:16: required from ‘void seqan::appendValue(StringSet >&, const TString2&, Tag) [with TString = Segment, Alloc<> >, InfixSegment>; TString2 = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: 146 | appendValue(me.strings, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = StringSet, Alloc<> >, InfixSegment> >; TValue = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4686:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: 4686 | appendValue(prefixes, infix(store.readSeqStore[i], 0, length(store.readSeqStore[i]) - cutLength)); /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h: In instantiation of ‘void seqan::_clear(Iter >&) [with TIndex = Index, Alloc<> >, Owner<> >, IndexSa<> >; TSpec = TopDown >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2751:9: required from ‘void seqan::clear(Iter >&) [with TIndex = Index, Alloc<> >, Owner<> >, IndexSa<> >; TSpec = TopDown >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2751 | _clear(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2774:10: required from ‘void seqan::goNextImpl(Iter > > >&, VSTreeIteratorTraits) [with TIndex = Index, Alloc<> >, Owner<> >, IndexSa<> >; TSpec = Preorder; THideEmptyEdges = True]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2774 | clear(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2052:13: required from ‘void seqan::goNext(Iter >&, TTraits) [with TIndex = Index, Alloc<> >, Owner<> >, IndexSa<> >; TSpec = TopDown >; TTraits = Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2052 | goNextImpl(it, traits); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2047:9: required from ‘void seqan::goNext(Iter >&) [with TIndex = Index, Alloc<> >, Owner<> >, IndexSa<> >; TSpec = TopDown >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2047 | goNext(it, typename GetVSTreeIteratorTraits< Iter > >::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:3526:19: required from ‘void traverseAndSearchCorrections(TTreeIterator, TFragmentStore&, seqan::String&, seqan::String&, FionaOptions&, seqan::Tag, unsigned int, FionaResources&) [with int LOOP_LEVEL = -1; TTreeIterator = seqan::Iter, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >, seqan::VSTree > > >; TFragmentStore = seqan::FragmentStore; TCorrections = CorrectionIndelPos; TValueId = unsigned int; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3526 | goNext(iter); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4944:41: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 4944 | traverseAndSearchCorrections<-1>(myConstrainedIterator, store, correctionList, firstCorrectionForRead, options, alg, maxReadLength, resources); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2745:27: warning: implicitly-declared ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ is deprecated [-Wdeprecated-copy] 2745 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA >’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = seqan::SimpleType]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Segment >*>, seqan::InfixSegment>*; TParam = seqan::Segment >*>, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Segment >*>, InfixSegment>*; TParam = Segment >*>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1481:31: required from ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String >*>, seqan::InfixSegment>, seqan::Array<4> >; TValue = const seqan::Segment >*>, seqan::InfixSegment>; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: 1481 | valueConstruct(begin(me, Standard()) + me_length, temp_copy); //??? this should be valueMoveConstruct /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Segment >*>, InfixSegment>; TTargetSpec = Array<4>; TValue = Segment >*>, InfixSegment>; TExpand = TagLimit_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = String >*>, InfixSegment>, Array<4> >; TValue = Segment >*>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:3625:32: required from ‘void traverseAndSearchCorrections(TTreeIterator, TFragmentStore&, seqan::String&, seqan::String&, FionaOptions&, seqan::Tag, unsigned int, FionaResources&) [with int LOOP_LEVEL = -1; TTreeIterator = seqan::Iter, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >, seqan::VSTree > > >; TFragmentStore = seqan::FragmentStore; TCorrections = CorrectionIndelPos; TValueId = unsigned int; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: 3625 | appendValue(correctCandidates, getOccurrences(iterSibling)); /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4944:41: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: 4944 | traverseAndSearchCorrections<-1>(myConstrainedIterator, store, correctionList, firstCorrectionForRead, options, alg, maxReadLength, resources); /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘constexpr seqan::Segment >*>, seqan::InfixSegment>::Segment(const seqan::Segment >*>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >*>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::Range >*>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1925:45: required from ‘static typename seqan::Size::Type seqan::_Resize_String::resize_(T&, typename seqan::Size::Type, const TValue&) [with T = seqan::String, seqan::Alloc<> >; TValue = seqan::SimpleType; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1925 | TSize new_capacity = reserve(me, new_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1964:50: required from ‘typename seqan::Size >::Type seqan::resize(String&, TSize, const TValue2&, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long unsigned int; TValue2 = SimpleType; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1964 | return _Resize_String >::resize_(me, new_length, val); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2153:18: required from ‘typename seqan::Size::Type seqan::resize(T&, TSize, const TValue&) [with T = String, Alloc<> >; TSize = long unsigned int; TValue = SimpleType; typename Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2153 | return resize(me, new_length, val, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:842:19: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 842 | resize(kmer, length(shape), (TValue)x); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1444:21: required from ‘void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1444 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1465:31: required from ‘void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1465 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:849:31: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String, seqan::Alloc<> >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 849 | arrayConstructMove(old_array, old_array + start, seq_array); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: required from ‘typename seqan::Size >::Type seqan::_clearSpace(String&, TSize, TPosition, TPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long unsigned int; TPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1014 | return ClearSpaceStringBase_ >::_clearSpace_(me, size, pos_begin, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1048:30: required from ‘typename seqan::Size >::Type seqan::resizeSpace(String&, TSize, TBeginPosition, TEndPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = int; TBeginPosition = short unsigned int; TEndPosition = int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1048 | TSize_ ret_ = _clearSpace( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^ 1049 | me, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~ 1050 | static_cast(size), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 1051 | static_cast(pos_begin), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1052 | static_cast(pos_end), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1053 | tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2212:23: required from ‘TSize seqan::resizeSpace(T&, TSize, TBeginPosition, TEndPosition) [with T = String, Alloc<> >; TSize = int; TBeginPosition = short unsigned int; TEndPosition = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2212 | return resizeSpace(me, size, pos_begin, pos_end, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2267:16: required from ‘void seqan::erase(T&, TBeginPosition, TEndPosition) [with T = String, Alloc<> >; TBeginPosition = short unsigned int; TEndPosition = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2267 | resizeSpace(me, 0, pos, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:1958:22: required from ‘unsigned int applyReadErrorCorrections(const seqan::String&, seqan::String&, TReadStore&, FionaOptions&) [with TCorrection = CorrectionIndelPos; TValue = unsigned int; TReadStore = seqan::FragmentStore]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1958 | erase(store.readSeqStore[readId], possibleCorrections[correction].errorPos, possibleCorrections[correction].errorPos + possibleCorrections[correction].indelLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5019:46: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 5019 | totalCorrections = applyReadErrorCorrections(correctionList,firstCorrectionForRead,store,options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1589:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1589 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:129: /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/sequence/iterator_range.h: In instantiation of ‘void seqan::assign(Range&, Pipe&) [with TIterator = Pair >*; TInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TPipeSpec = Multi >, String > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/sequence/iterator_range.h:359:11: required from ‘void seqan::operator<<(Range&, Pipe&) [with TIterator = Pair >*; TInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TPipeSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 359 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = Range >*>; TString = String, Alloc<> >; TSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 110 | suffixArray << creator; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = Range >*>; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = Range >*>; TText = StringSet, Alloc<> >, Owner<> >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/sequence/iterator_range.h:350:15: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 350 | *_cur = *src; | ~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveBackwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1641:30: required from ‘void seqan::arrayMoveBackward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1641 | _arrayMoveBackwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1213:26: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = SimpleType*; TSource1 = SimpleType*; TSource2 = SimpleType*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1213 | arrayMoveBackward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1660:14: required from ‘void seqan::_arrayClearSpacePointer(TValue*, size_t, size_t, size_t, const True&) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1660 | arrayMove(array_begin + keep_from, array_begin + array_length, array_begin + move_to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1681:28: required from ‘void seqan::arrayClearSpace(TValue*, size_t, size_t, size_t) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1681 | _arrayClearSpacePointer(array_begin, array_length, keep_from, move_to, typename IsSimple::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:856:28: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1048:30: required from ‘typename seqan::Size >::Type seqan::resizeSpace(String&, TSize, TBeginPosition, TEndPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = int; TBeginPosition = short unsigned int; TEndPosition = int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1048 | TSize_ ret_ = _clearSpace( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^ 1049 | me, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~ 1050 | static_cast(size), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 1051 | static_cast(pos_begin), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1052 | static_cast(pos_end), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1053 | tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2212:23: required from ‘TSize seqan::resizeSpace(T&, TSize, TBeginPosition, TEndPosition) [with T = String, Alloc<> >; TSize = int; TBeginPosition = short unsigned int; TEndPosition = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2212 | return resizeSpace(me, size, pos_begin, pos_end, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2267:16: required from ‘void seqan::erase(T&, TBeginPosition, TEndPosition) [with T = String, Alloc<> >; TBeginPosition = short unsigned int; TEndPosition = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2267 | resizeSpace(me, 0, pos, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:1958:22: required from ‘unsigned int applyReadErrorCorrections(const seqan::String&, seqan::String&, TReadStore&, FionaOptions&) [with TCorrection = CorrectionIndelPos; TValue = unsigned int; TReadStore = seqan::FragmentStore]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1958 | erase(store.readSeqStore[readId], possibleCorrections[correction].errorPos, possibleCorrections[correction].errorPos + possibleCorrections[correction].indelLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5019:46: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5019 | totalCorrections = applyReadErrorCorrections(correctionList,firstCorrectionForRead,store,options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1621:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1621 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:98: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h: In instantiation of ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = Range >*>; TString = String, Alloc<> >; TSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 108 | creator_t creator(unsigner, stringSetLimits(stringSet)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = Range >*>; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = Range >*>; TText = StringSet, Alloc<> >, Owner<> >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:347:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 347 | o1.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:357:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 357 | o0.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:361:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | o3.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:365:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 365 | o5.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:369:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 369 | o6.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:395:125: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 395 | /* 6 */ cp___(o6,0, *textIn); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:398:126: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 398 | /* 5 */ cp___(o5,0,cp___(o6,1, *textIn)); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:401:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 401 | /* 4 */ o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:405:127: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 405 | /* 3 */ cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:408:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 408 | /* 2 */ o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:412:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 412 | /* 1 */ o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:424:128: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 424 | /* 0 */ cp___(o0,0,cp___(o1,1,cp___(o2,2,cp___(o3,3, *textIn)))); ++textIn; o0.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:426:129: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 426 | /* 6 */ cp___(o0,1,cp___(o1,2,cp___(o2,3,cp___(o3,4, cp___(o6,0, *textIn))))); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:428:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 428 | /* 5 */ cp___(o0,2,cp___(o1,3,cp___(o2,4,cp___(o3,5, cp___(o5,0,cp___(o6,1, *textIn)))))); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:430:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 430 | /* 4 */ o0.i2[0] = o1.i2[1] = o2.i2[2] = o3.i2[2] = o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:435:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 435 | /* 3 */ cp___(o0,4,cp___(o1,5, cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:437:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 437 | /* 2 */ o0.i2[1] = o1.i2[2] = o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:441:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 441 | /* 1 */ o0.i2[2] = o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:454:128: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 454 | /* 0 */ cp___(o0,0,cp___(o1,1,cp___(o2,2,cp___(o3,3, *textIn)))); ++textIn; o0.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:456:129: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 456 | /* 6 */ cp___(o0,1,cp___(o1,2,cp___(o2,3,cp___(o3,4, cp___(o6,0, *textIn))))); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:458:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 458 | /* 5 */ cp___(o0,2,cp___(o1,3,cp___(o2,4,cp___(o3,5, cp___(o5,0,cp___(o6,1, *textIn)))))); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:460:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 460 | /* 4 */ o0.i2[0] = o1.i2[1] = o2.i2[2] = o3.i2[2] = o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:465:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 465 | /* 3 */ cp___(o0,4,cp___(o1,5, cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:467:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 467 | /* 2 */ o0.i2[1] = o1.i2[2] = o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:471:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 471 | /* 1 */ o0.i2[2] = o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:56: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::setHost(PairIncrementer_&, const TLimits2&) [with TPair = Pair >; TLimits = String >; TLimits2 = String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:382:10: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 382 | setHost(p, limits); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = Range >*>; TString = String, Alloc<> >; TSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 108 | creator_t creator(unsigner, stringSetLimits(stringSet)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = Range >*>; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:1032:16: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1032 | me.pos = TPair(0, 0); | ~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::pop(Pipe&, TValue&) [with TInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >, Skew7>; TSpec = Counter; TValue = Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_separator7.h:62:7: required from ‘void seqan::_skew7SeparateSlices(TInput&, const TFunctor&, TOut1&, TOut2&, TOut4&) [with TInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >, Skew7>, Counter>; TFunctor = _skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > >; TOut1 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut2 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut4 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 62 | pop(in, i); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:386:26: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 386 | _skew7SeparateSlices( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^ 387 | renamer, func_slice, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~ 388 | names_S1, names_S2, names_S4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = Range >*>; TString = String, Alloc<> >; TSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 108 | creator_t creator(unsigner, stringSetLimits(stringSet)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = Range >*>; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:619:14: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 619 | Ref_ = *me; | ~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:218:12: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = Range >*>; TString = String, Alloc<> >; TSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 218 | struct Pipe< TInput, Multi > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = Range >*>; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:65: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h: In instantiation of ‘seqan::Pipe >, TPair, TLimitsString> >& seqan::Pipe >, TPair, TLimitsString> >::operator++() [with TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPair = seqan::Pair >; TLimitsString = seqan::String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:317:20: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 317 | sorter << sampler; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:599:20: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 599 | tmp.i1 = localPos; | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:324:41: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 324 | TNames_Sliced names_sliced; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::pop(TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:925:24: required from ‘void seqan::Pool::pop(TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 925 | reader->pop(Ref_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1159:15: required from ‘void seqan::pop(Pool&, TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1159 | me.pop(Ref_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_separator7.h:62:7: required from ‘void seqan::_skew7SeparateSlices(TInput&, const TFunctor&, TOut1&, TOut2&, TOut4&) [with TInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TFunctor = _skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > >; TOut1 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut2 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut4 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 62 | pop(in, i); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:342:25: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 342 | _skew7SeparateSlices( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^ 343 | names_sliced, func_slice, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~ 344 | names_S1, names_S2, names_S4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:926:18: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 926 | Ref_ = *cur; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 5, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:414:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 414 | if (r >= 6) push(out6, o6); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 5, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 4, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:415:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 415 | if (r >= 5) push(out5, o5); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 4, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:432:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 432 | if (r >= 3) push(out3, o3); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:443:9: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 443 | push(out0, o0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:243:12: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 243 | struct Pipe< TInput, Skew7 > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >, seqan::Tag >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T = seqan::SimpleType; unsigned int SIZE = 6; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:404:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 404 | _copy(inValue[0], *in.in1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/sequence/iterator_range.h:349:104: required from ‘void seqan::assign(Range&, Pipe&) [with TIterator = Pair >*; TInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TPipeSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 349 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/sequence/iterator_range.h:359:11: required from ‘void seqan::operator<<(Range&, Pipe&) [with TIterator = Pair >*; TInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TPipeSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 359 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:385:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 385 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: ‘struct seqan::Pair >’ declared here 95 | struct Pair | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >, seqan::Tag >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T = seqan::SimpleType; unsigned int SIZE = 4; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:422:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 422 | _copy(inValue[5], *in.in3); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/sequence/iterator_range.h:349:104: required from ‘void seqan::assign(Range&, Pipe&) [with TIterator = Pair >*; TInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TPipeSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 349 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/sequence/iterator_range.h:359:11: required from ‘void seqan::operator<<(Range&, Pipe&) [with TIterator = Pair >*; TInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TPipeSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 359 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:385:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 385 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: ‘struct seqan::Pair >’ declared here 95 | struct Pair | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >, seqan::Tag >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T = seqan::SimpleType; unsigned int SIZE = 5; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:431:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 431 | _copy(inValue[6], *in.in4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/sequence/iterator_range.h:349:104: required from ‘void seqan::assign(Range&, Pipe&) [with TIterator = Pair >*; TInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TPipeSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 349 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/sequence/iterator_range.h:359:11: required from ‘void seqan::operator<<(Range&, Pipe&) [with TIterator = Pair >*; TInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TPipeSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 359 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:385:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 385 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: ‘struct seqan::Pair >’ declared here 95 | struct Pair | ^~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:64: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘const typename seqan::Value > >::Type& seqan::Pipe >::operator*() [with TInput = seqan::Pool >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NCompMulti >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>; typename seqan::Value > >::Type = seqan::Pair >, long unsigned int, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:148:22: required from ‘const typename seqan::Value > >::Type seqan::Pipe >::operator*() const [with TInput = seqan::Pipe >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int> > >; TFunctor = seqan::_skew7GlobalSlicedMulti >, long unsigned int, seqan::Tag >, seqan::String >, long unsigned int, seqan::Pair > >; typename seqan::Value > >::Type = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 148 | return F(*in); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:24: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 328 | names_sliced << slicedPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:134:20: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 134 | tmp.i1 = getValueI1(*in); | ~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NCompMulti >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int> > >; TFunctor = seqan::_skew7GlobalSlicedMulti >, long unsigned int, seqan::Tag >, seqan::String >, long unsigned int, seqan::Pair > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 153 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | names_sliced << slicedPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:143:22: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >& seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 143 | last = *in; | ~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple, 7, seqan::BitPacked<> >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_separator7.h:64:9: required from ‘void seqan::_skew7SeparateSlices(TInput&, const TFunctor&, TOut1&, TOut2&, TOut4&) [with TInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TFunctor = _skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > >; TOut1 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut2 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut4 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 64 | push(out4, i); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:342:25: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 342 | _skew7SeparateSlices( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^ 343 | names_sliced, func_slice, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~ 344 | names_S1, names_S2, names_S4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_separator7.h:64:9: required from ‘void seqan::_skew7SeparateSlices(TInput&, const TFunctor&, TOut1&, TOut2&, TOut4&) [with TInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TFunctor = _skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > >; TOut1 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut2 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut4 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 64 | push(out4, i); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:342:25: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 342 | _skew7SeparateSlices( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^ 343 | names_sliced, func_slice, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~ 344 | names_S1, names_S2, names_S4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TSpec = MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:416:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 416 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TSpec = MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:416:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 416 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:317:20: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >& seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple, 7, seqan::BitPacked<> >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘bool seqan::control(Pipe >&, const ControlBeginRead&) [with TInput = Pool >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >; TCompare = _skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int>; ControlBeginRead = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:651:23: required from ‘bool seqan::control(Pipe&, const TCommand&) [with TInput = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >; TSpec = Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > >; TCommand = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 651 | return control(me.in, command); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >; TSpec = Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:164:21: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >& seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 164 | me.last = *me.in; | ~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple, 7, seqan::BitPacked<> >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:165:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 165 | me.tmp.i1 = me.last.i1; | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Pair >; TConfig = MapperConfigSize >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:401:106: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 401 | /* 4 */ o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:341:41: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 341 | TNames_Sliced names_sliced(map_sliced); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NComp >, seqan::Tag >, int>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:345:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 345 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:143:22: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 143 | last = *in; | ~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:352:45: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 352 | TNames_Linear_Unique names_linear(map_linear); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:161:29: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 161 | if (r >= 6) push(out6, o6); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:162:29: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 162 | if (r >= 5) push(out5, o5); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:179:29: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 179 | if (r >= 3) push(out3, o3); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:190:17: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 190 | push(out0, o0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:173:12: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 173 | struct Pipe< TInput, Skew3 > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::setHost(PairDecrementer_&, const TLimits2&) [with TPair = Pair >; TLimits = String >; unsigned int m = 7; TLimits2 = String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:537:11: required from ‘void seqan::Pipe >, TPair, TLimitsString> >::prepare() [with TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPair = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 537 | setHost(localPos, limits); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:613:19: required from ‘bool seqan::control(Pipe, TPair, TLimitsString> >&, const ControlBeginRead&) [with TInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; unsigned int m = 7; TPack = BitPacked<>; TPair = Pair >; TLimitsString = String >; ControlBeginRead = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 613 | me.prepare(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, Pair >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:1119:16: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1119 | me.pos = TPair(0, 0); | ~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h: In instantiation of ‘void seqan::Pipe >, TPair, TLimitsString> >::fill() [with TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPair = seqan::Pair >; TLimitsString = seqan::String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:544:13: required from ‘void seqan::Pipe >, TPair, TLimitsString> >::prepare() [with TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPair = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 544 | fill(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:613:19: required from ‘bool seqan::control(Pipe, TPair, TLimitsString> >&, const ControlBeginRead&) [with TInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; unsigned int m = 7; TPack = BitPacked<>; TPair = Pair >; TLimitsString = String >; ControlBeginRead = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 613 | me.prepare(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, Pair >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:557:32: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 557 | tmp.i1 = localPos; | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘bool seqan::control(Pipe >&, const ControlBeginRead&) [with TInput = Pool >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >; TCompare = _skew7NComp >, Tag >, int>; ControlBeginRead = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pool >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >; TSpec = Namer<_skew7NComp >, Tag >, int> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:345:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 345 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:164:21: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 164 | me.last = *me.in; | ~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h: In instantiation of ‘TResult seqan::_skew7NComp::operator()(const TValue&, const TValue&) const [with TValue = seqan::Pair >, seqan::Tag >; TResult = int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:141:30: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NComp >, seqan::Tag >, int>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 141 | if (!eof(in) && C(last, *in) != 0) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:345:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 345 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:74:43: warning: taking address of packed member of ‘seqan::Tuple >’ may result in an unaligned pointer value [-Waddress-of-packed-member] 74 | const TStoredValue *sa = a.i2.i; | ~~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: taking address of packed member of ‘seqan::Tuple >’ may result in an unaligned pointer value [-Waddress-of-packed-member] 75 | const TStoredValue *sb = b.i2.i; | ~~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:163:29: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 163 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:163:29: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 163 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Pair >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >, Sampler<7, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >, Sampler<7, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >, Sampler<7, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:335:20: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Pair >; TConfig = MapperConfigSize<_skew7NMapLinear >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:148:104: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 148 | /* 4 */ o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn).i2; ++nameIn; o4.i1 = p--; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:247:41: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 247 | TNames_Sliced names_sliced(map_sliced); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 218 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:376:34: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TCompare = seqan::_skew3NComp >, seqan::Tag >, int>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:251:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 251 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 218 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:376:34: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:143:22: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 143 | last = *in; | ~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:259:45: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 259 | TNames_Linear_Unique names_linear(map_linear); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 218 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:376:34: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple, Tag >; TSpec = SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender3.h:123:17: required from ‘bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 123 | push(out0, o0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:269:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 269 | _skew3Extend(textIn, names_linear, sortedS0, sortedS12); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 218 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:376:34: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:59: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h: In instantiation of ‘const typename seqan::StoredTupleValue_::Type& seqan::Tuple >::operator[](TPos) const [with TPos = int; TValue = long unsigned int; unsigned int SIZE = 6; typename seqan::StoredTupleValue_::Type = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:124:27: required from ‘bool seqan::CompareSkewDCStream::operator()(const seqan::SkewDCStream&, const seqan::SkewDCStream&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 124 | if (a.i.i3[i] < b.i.i3[i]) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:307:23: required from ‘void seqan::Pipe, seqan::Merger7>::insertStream(unsigned int) [with TInput0 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 307 | if (!streamGreater(inValue[stream],inValue[rank[right]])) break; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:319:4: required from ‘seqan::Pipe, seqan::Merger7>& seqan::Pipe, seqan::Merger7>::operator++() [with TInput0 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 319 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:440:13: required from ‘seqan::Pipe& seqan::Pipe::operator++() [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 440 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_counter.h:105:13: required from ‘seqan::Pipe& seqan::Pipe::operator++() [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >, seqan::Skew7>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 105 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:620:9: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: returning reference to temporary [-Wreturn-local-addr] 171 | return i[k]; | ~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:446:6: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 446 | ++in.in5; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘bool seqan::control(Pipe >&, const ControlBeginRead&) [with TInput = Pool >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >; TCompare = _skew3NComp >, Tag >, int>; ControlBeginRead = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pool >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >; TSpec = Namer<_skew3NComp >, Tag >, int> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:251:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 251 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:164:21: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 164 | me.last = *me.in; | ~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h: In instantiation of ‘TResult seqan::_skew3NComp::operator()(const TValue&, const TValue&) const [with TValue = seqan::Pair >, seqan::Tag >; TResult = int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:141:30: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TCompare = seqan::_skew3NComp >, seqan::Tag >, int>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 141 | if (!eof(in) && C(last, *in) != 0) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:251:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 251 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:74:43: warning: taking address of packed member of ‘seqan::Tuple >’ may result in an unaligned pointer value [-Waddress-of-packed-member] 74 | const TStoredValue *sa = a.i2.i; | ~~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: taking address of packed member of ‘seqan::Tuple >’ may result in an unaligned pointer value [-Waddress-of-packed-member] 75 | const TStoredValue *sb = b.i2.i; | ~~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple, Tag >; TSpec = MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender3.h:101:17: required from ‘bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 101 | push(out12, o2); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:269:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 269 | _skew3Extend(textIn, names_linear, sortedS0, sortedS12); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple, Tag >; TSpec = MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender3.h:101:17: required from ‘bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 101 | push(out12, o2); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:269:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 269 | _skew3Extend(textIn, names_linear, sortedS0, sortedS12); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Pair >; TConfig = MapperConfigSize<_skew7NMapSliced >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >; TFunctor = seqan::filterI2 >, long unsigned int>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 153 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_lss.h:415:29: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Pair >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >, Sampler<3> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >, Sampler<3> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >, Sampler<3> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:241:20: [ skipping 11 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Pair >; TConfig = MapperConfigSize<_skew3NMapLinear >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender3.h:86:38: required from ‘bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 86 | o2.i2[0] = (*nameIn).i2; ++nameIn; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:269:29: [ skipping 11 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended, Tuple >, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer, seqan::Tuple >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:301:6: required from ‘void seqan::Pipe, seqan::Merger7>::insertStream(unsigned int) [with TInput0 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 301 | ++in.in5; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:319:4: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Pair >; TConfig = MapperConfigSize<_skew3NMapSliced >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: [ skipping 13 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple, Tag >; TConfig = MapperConfigSize<_skew3NMapExtended, Tuple, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer, seqan::Tuple, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger3.h:111:17: required from ‘seqan::Pipe, seqan::Merger3>& seqan::Pipe, seqan::Merger3>::operator++() [with TInput0 = seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TInput12 = seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 111 | ++in.in2; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:329:13: [ skipping 15 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h: In instantiation of ‘const typename seqan::StoredTupleValue_::Type& seqan::Tuple >::operator[](TPos) const [with TPos = unsigned int; TValue = long unsigned int; unsigned int SIZE = 6; typename seqan::StoredTupleValue_::Type = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:191:25: required from ‘TResult seqan::_skew7ExtendComp::operator()(const TValue&, const TValue&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; unsigned int EXT_LENGTH = 3; TResult = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 191 | if (a.i3[i] == b.i3[i]) continue; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:50:21: required from ‘bool seqan::MergeStreamComparer::operator()(const seqan::PageBucket&, const seqan::PageBucket&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; Compare = seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 3, int>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 50 | return C(static_cast(*(a.cur)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 51 | static_cast(*(b.cur))) > 0; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:356:13: required from ‘void seqan::_adjustHeapTowardLeaves(PriorityType&, TValue, TSize, TSize) [with TValue = PageBucketExtended, Tuple >, Tag > >; TLess = MergeStreamComparer, Tuple >, Tag >, _skew7ExtendComp, Tuple >, Tag >, 3, int> >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 356 | if ( less ( element, me.heap[i] ) ) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:335:26: required from ‘void seqan::pop(PriorityType&) [with TValue = PageBucketExtended, Tuple >, Tag > >; TLess = MergeStreamComparer, Tuple >, Tag >, _skew7ExtendComp, Tuple >, Tag >, 3, int> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 335 | _adjustHeapTowardLeaves(me, element, 0, 2 ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18: required from ‘void seqan::Handler, seqan::Tag >::pop() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TPoolSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 311 | ::seqan::pop(pqueue); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24: [ skipping 15 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: returning reference to temporary [-Wreturn-local-addr] 171 | return i[k]; | ~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h: In instantiation of ‘const typename seqan::StoredTupleValue_::Type& seqan::Tuple >::operator[](TPos) const [with TPos = unsigned int; TValue = long unsigned int; unsigned int SIZE = 4; typename seqan::StoredTupleValue_::Type = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:191:25: required from ‘TResult seqan::_skew7ExtendComp::operator()(const TValue&, const TValue&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; unsigned int EXT_LENGTH = 1; TResult = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 191 | if (a.i3[i] == b.i3[i]) continue; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:50:21: required from ‘bool seqan::MergeStreamComparer::operator()(const seqan::PageBucket&, const seqan::PageBucket&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; Compare = seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 1, int>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 50 | return C(static_cast(*(a.cur)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 51 | static_cast(*(b.cur))) > 0; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:356:13: required from ‘void seqan::_adjustHeapTowardLeaves(PriorityType&, TValue, TSize, TSize) [with TValue = PageBucketExtended, Tuple >, Tag > >; TLess = MergeStreamComparer, Tuple >, Tag >, _skew7ExtendComp, Tuple >, Tag >, 1, int> >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 356 | if ( less ( element, me.heap[i] ) ) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:335:26: required from ‘void seqan::pop(PriorityType&) [with TValue = PageBucketExtended, Tuple >, Tag > >; TLess = MergeStreamComparer, Tuple >, Tag >, _skew7ExtendComp, Tuple >, Tag >, 1, int> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 335 | _adjustHeapTowardLeaves(me, element, 0, 2 ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18: required from ‘void seqan::Handler, seqan::Tag >::pop() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TPoolSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 311 | ::seqan::pop(pqueue); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24: [ skipping 15 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: returning reference to temporary [-Wreturn-local-addr] 171 | return i[k]; | ~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h: In instantiation of ‘const typename seqan::StoredTupleValue_::Type& seqan::Tuple >::operator[](TPos) const [with TPos = unsigned int; TValue = long unsigned int; unsigned int SIZE = 5; typename seqan::StoredTupleValue_::Type = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:191:25: required from ‘TResult seqan::_skew7ExtendComp::operator()(const TValue&, const TValue&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; unsigned int EXT_LENGTH = 2; TResult = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 191 | if (a.i3[i] == b.i3[i]) continue; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:50:21: required from ‘bool seqan::MergeStreamComparer::operator()(const seqan::PageBucket&, const seqan::PageBucket&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; Compare = seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 2, int>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 50 | return C(static_cast(*(a.cur)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 51 | static_cast(*(b.cur))) > 0; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:356:13: required from ‘void seqan::_adjustHeapTowardLeaves(PriorityType&, TValue, TSize, TSize) [with TValue = PageBucketExtended, Tuple >, Tag > >; TLess = MergeStreamComparer, Tuple >, Tag >, _skew7ExtendComp, Tuple >, Tag >, 2, int> >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 356 | if ( less ( element, me.heap[i] ) ) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:335:26: required from ‘void seqan::pop(PriorityType&) [with TValue = PageBucketExtended, Tuple >, Tag > >; TLess = MergeStreamComparer, Tuple >, Tag >, _skew7ExtendComp, Tuple >, Tag >, 2, int> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 335 | _adjustHeapTowardLeaves(me, element, 0, 2 ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18: required from ‘void seqan::Handler, seqan::Tag >::pop() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TPoolSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 311 | ::seqan::pop(pqueue); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24: [ skipping 15 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: returning reference to temporary [-Wreturn-local-addr] 171 | return i[k]; | ~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h: In function ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:142:117: warning: this statement may fall through [-Wimplicit-fallthrough=] 142 | /* 6 */ cp___(o6,0, *textIn); ++textIn; o6.i1 = p--; | ~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:144:9: note: here 144 | case 5: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:145:118: warning: this statement may fall through [-Wimplicit-fallthrough=] 145 | /* 5 */ cp___(o5,0,cp___(o6,1, *textIn)); ++textIn; o5.i1 = p--; | ~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:147:9: note: here 147 | case 4: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:149:103: warning: this statement may fall through [-Wimplicit-fallthrough=] 149 | cp___(o4,0,cp___(o5,1,cp___(o6,2, *textIn))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:151:9: note: here 151 | case 3: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:152:119: warning: this statement may fall through [-Wimplicit-fallthrough=] 152 | /* 3 */ cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))); ++textIn; o3.i1 = p--; | ~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:154:9: note: here 154 | case 2: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:156:105: warning: this statement may fall through [-Wimplicit-fallthrough=] 156 | cp___(o2,0,cp___(o3,1,cp___(o4,2,cp___(o5,3,cp___(o6,4, *textIn))))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:158:9: note: here 158 | case 1: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h: In function ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:395:130: warning: this statement may fall through [-Wimplicit-fallthrough=] 395 | /* 6 */ cp___(o6,0, *textIn); ++textIn; o6.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:397:25: note: here 397 | case 5: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:398:131: warning: this statement may fall through [-Wimplicit-fallthrough=] 398 | /* 5 */ cp___(o5,0,cp___(o6,1, *textIn)); ++textIn; o5.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:400:25: note: here 400 | case 4: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:402:162: warning: this statement may fall through [-Wimplicit-fallthrough=] 402 | cp___(o4,0,cp___(o5,1,cp___(o6,2, *textIn))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:404:25: note: here 404 | case 3: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:405:132: warning: this statement may fall through [-Wimplicit-fallthrough=] 405 | /* 3 */ cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))); ++textIn; o3.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:407:25: note: here 407 | case 2: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:409:138: warning: this statement may fall through [-Wimplicit-fallthrough=] 409 | cp___(o2,0,cp___(o3,1,cp___(o4,2,cp___(o5,3,cp___(o6,4, *textIn))))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:411:25: note: here 411 | case 1: | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:64, from /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:121: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h: In member function ‘void seqan::SequenceStreamImpl_::_guessFileTypeAndFormatForReadingAndInitialize()’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:310:25: warning: this statement may fall through [-Wimplicit-fallthrough=] 310 | _fileFormat = this->_checkFormat(*_istreamReader); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:313:9: note: here 313 | case SeqIOFileType_::FILE_TYPE_AUTO: | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/parallel/compiletime_settings.h:33, from /usr/include/c++/14/parallel/parallel.h:37, from /usr/include/c++/14/parallel/base.h:40, from /usr/include/c++/14/parallel/algobase.h:40, from /usr/include/c++/14/bits/stl_algobase.h:2330, from /usr/include/c++/14/string:51: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int> > >(seqan::PriorityType >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, unsigned long>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:423:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, unsigned long>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int> > >(seqan::PriorityType >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, unsigned long>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:432:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, unsigned long>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended, seqan::Tuple >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended, seqan::Tuple >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, seqan::Tuple >, seqan::Tag > >, void, unsigned long>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 1u, int> > >(seqan::PriorityType, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 1u, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned long>, unsigned long, seqan::File > > > > >, seqan::Merger7>::insertStream(unsigned int)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:279:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned long>, unsigned long, seqan::File > > > > >, seqan::Merger7>::insertStream(unsigned int)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended, seqan::Tuple >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended, seqan::Tuple >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, seqan::Tuple >, seqan::Tag > >, void, unsigned long>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 2u, int> > >(seqan::PriorityType, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 2u, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned long>, unsigned long, seqan::File > > > > >, seqan::Merger7>::insertStream(unsigned int)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:289:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned long>, unsigned long, seqan::File > > > > >, seqan::Merger7>::insertStream(unsigned int)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate, seqan::Tuple, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended, seqan::Tuple, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended, seqan::Tuple, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, seqan::Tuple, seqan::Tag > >, void, unsigned long>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Tuple, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, seqan::Tuple, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Tuple, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, seqan::Tuple, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, seqan::Tuple, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, seqan::Tuple, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, seqan::Tuple, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Tuple, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, seqan::Tuple, seqan::Tag > >, seqan::Alloc > >(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, seqan::Size, seqan::Tuple, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size, seqan::Tuple, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, seqan::Tuple, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Tuple, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop, seqan::Tuple, seqan::Tag > >, seqan::MergeStreamComparer, seqan::Tuple, seqan::Tag >, seqan::_skew3ExtendComp, seqan::Tuple, seqan::Tag >, int> > >(seqan::PriorityType, seqan::Tuple, seqan::Tag > >, seqan::MergeStreamComparer, seqan::Tuple, seqan::Tag >, seqan::_skew3ExtendComp, seqan::Tuple, seqan::Tag >, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned long>, unsigned long, seqan::File > > > > >, seqan::Merger3>::operator++() [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger3.h:127:17: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned long>, unsigned long, seqan::File > > > > >, seqan::Merger3>::operator++() [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tag >, seqan::_skew7NComp >, seqan::Tag >, int> > >(seqan::PriorityType >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tag >, seqan::_skew7NComp >, seqan::Tag >, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘seqan::append >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > >, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > > >(seqan::Pool >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >&, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >&)bool [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘seqan::append >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > >, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > > >(seqan::Pool >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >&, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >&)bool [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tag >, seqan::_skew3NComp >, seqan::Tag >, int> > >(seqan::PriorityType >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tag >, seqan::_skew3NComp >, seqan::Tag >, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘seqan::append >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > >, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > > >(seqan::Pool >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >&, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > >, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > > >(seqan::Pool >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >&, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > >, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > > >(seqan::Pool >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >&, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >&)bool [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘seqan::assign >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > >, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > > >(seqan::Pool >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >&, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >&)bool [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7NCompMulti >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >(seqan::PriorityType >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7NCompMulti >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned long, seqan::Tag >, seqan::String >, unsigned long, seqan::Pair > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13, inlined from ‘seqan::append >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > >, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned long, seqan::Tag >, seqan::String >, unsigned long, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned long, seqan::Tag >, seqan::String >, unsigned long, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > >, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned long, seqan::Tag >, seqan::String >, unsigned long, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned long, seqan::Tag >, seqan::String >, unsigned long, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > >, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned long, seqan::Tag >, seqan::String >, unsigned long, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned long, seqan::Tag >, seqan::String >, unsigned long, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘seqan::operator<< >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > >, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned long, seqan::Tag >, seqan::String >, unsigned long, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned long, seqan::Tag >, seqan::String >, unsigned long, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘seqan::Pipe, seqan::Alloc >, seqan::Owner > > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> >, seqan::Multi >, seqan::String > > >::process, seqan::Alloc >, seqan::Owner > > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> > >(seqan::Pipe, seqan::Alloc >, seqan::Owner > > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> >&)bool [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe, seqan::Alloc >, seqan::Owner > > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> >, seqan::Multi >, seqan::String > > >::process, seqan::Alloc >, seqan::Owner > > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> > >(seqan::Pipe, seqan::Alloc >, seqan::Owner > > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> >&)bool [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ [ 4%] Linking CXX executable ../../../bin/fiona cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/fiona && /usr/bin/cmake -E cmake_link_script CMakeFiles/fiona.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/fiona.dir/fiona.cpp.o -o ../../../bin/fiona -lrt -L/usr/lib64 -lz In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toHtml’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/tool_doc.h:284:34: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551568’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘_toHtml’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘pop’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:423:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:432:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:279:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:289:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘assign.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger3.h:127:17: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘operator++.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘operator<<’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘process.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:345:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘process.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘operator<<’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘process.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘process.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 4%] Built target fiona make -f core/apps/fiona/CMakeFiles/fiona_illumina.dir/build.make core/apps/fiona/CMakeFiles/fiona_illumina.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/fiona /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/fiona/CMakeFiles/fiona_illumina.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f core/apps/fiona/CMakeFiles/fiona_illumina.dir/build.make core/apps/fiona/CMakeFiles/fiona_illumina.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 4%] Building CXX object core/apps/fiona/CMakeFiles/fiona_illumina.dir/fiona.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/fiona && /usr/bin/g++ -DFIONA_ILLUMINA -DSEQAN_DATE=\"\" -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT core/apps/fiona/CMakeFiles/fiona_illumina.dir/fiona.cpp.o -MF CMakeFiles/fiona_illumina.dir/fiona.cpp.o.d -o CMakeFiles/fiona_illumina.dir/fiona.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:40, from /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:119: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:103: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:45:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:54:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:63:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 63 | struct filterI3 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:401:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 401 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:507:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 507 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:78: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:42:48: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public ::std::binary_function < PageBucket, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:57:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:257:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 257 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:372:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 372 | struct insertBucket : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:44: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_set.h:373:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:404:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 404 | public::std::binary_function // functor for operator> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:744:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 744 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:760:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 760 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:80: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:854:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 854 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:902:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 902 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:970:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 970 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1039:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1039 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1073:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1073 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1121:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1121 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2093:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2093 | struct _qgramComp : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2112:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2112 | public ::std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:46:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 46 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:85:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 85 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:96: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:98:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 98 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:112:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 112 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:127:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:144:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:154:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:99: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:110:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 110 | public ::std::binary_function < SkewDCStream, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:143:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 143 | public ::std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:100: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:99:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 99 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:118:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:132:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 132 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:154:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:175:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 175 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:185:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 185 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:103: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:57:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:97:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 97 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:141:29: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:109: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:59:42: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:164:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, KasaiOriginal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:312:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 312 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:313:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 313 | LCP[isa - 1] = h; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:379:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 379 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:380:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 380 | LCP[i] = h | mark; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const StringSet&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:483:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 483 | for(TSize hMax = _min(getValueI2((TPair)dec), n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:484:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 484 | LCP[i] = h | mark; | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:113: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h:144:50: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:585:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 585 | public ::std::binary_function< Pair, Pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:128: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In function ‘void seqan::_storeWotdChildren(Index > >&, TSize, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:504:27: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 504 | } else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:506:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 506 | for (TDirSize d = index.sentinelBound - index.sentinelOcc; d != index.sentinelBound; ++d) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:136: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h:149:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 149 | struct RepeatLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:157: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h: In function ‘typename seqan::Iterator >::Type seqan::_upperBoundLcpe(TText&, TSA&, SearchTreeIterator, TQuery&, TDiff_, TDiff_)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1498:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1498 | for(; i && ordEqual(*t, convert(*q)); --i, ++t, ++q) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1501 | if (q == qEnd || t == tEnd || !ordGreater(*t, convert(*q))) { | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:1687:34: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1687 | struct LessOverlap : public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:1705:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1705 | struct LessPositionOverlap : public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp: In function ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag)’: /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4212:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 4212 | if (options.verbosity >= 2) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4215:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 4215 | Dna5String tmp; | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4235:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 4235 | if (options.verbosity >= 2) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4238:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 4238 | double experrreads = expectedValueTheoretical(options.expectedTheoretical, readLengthHist, options.genomeLength, options.errorrate); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4413:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 4413 | if (options.verbosity >= 2) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4416:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 4416 | if (options.errorrate != 0 && options.wovsum != 0) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4461:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 4461 | if (options.verbosity >= 1) | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:58, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:116: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/profiling.h:81:41: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 81 | #define SEQAN_PROTIMESTART(a) _proFloat a = sysTime() | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4463:9: note: in expansion of macro ‘SEQAN_PROTIMESTART’ 4463 | SEQAN_PROTIMESTART(search); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4684:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 4684 | for (unsigned i = 0; i < length(store.readSeqStore); ++i) | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4689:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 4689 | TFionaQgramIndex qgramIndex(prefixes); | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4852:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 4852 | if (options.verbosity >= 1) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4854:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 4854 | if (inTerm && options.verbosity >= 2) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5027:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 5027 | if (options.verbosity >= 1) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5032:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 5032 | resize(store.readSeqStore, readCount); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp: In function ‘int main(int, const char**)’: /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5479:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 5479 | if (options.verbosity >= 1) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5483:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 5483 | bool autoCycles = (options.cycles == 0 || options.cycles == 1000); | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5486:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 5486 | if (options.verbosity >= 1) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/profiling.h:81:41: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 81 | #define SEQAN_PROTIMESTART(a) _proFloat a = sysTime() | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5489:9: note: in expansion of macro ‘SEQAN_PROTIMESTART’ 5489 | SEQAN_PROTIMESTART(correction); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5495:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 5495 | if (options.verbosity >= 1) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5497:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 5497 | if (!loadReadsNoNames(store, options.inputFilename, options)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5561:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 5561 | if (options.verbosity >= 1) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5563:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 5563 | options.autolevel = (options.fromLevel <= 1); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5671:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 5671 | if (res != 0) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5674:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 5674 | if (options.verbosity >= 1 && options.cycles > 1) | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:132: /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/index_qgram_parallel.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints, Tag) [with TSA = String >, Alloc<> >; TString = Segment, Alloc<> >, InfixSegment>; TSpec = Owner<>; TShape = Shape, UngappedShape<10> >; TDir = String >; TBucketMap = Nothing; TWithConstraints = True; TStepSize = long unsigned int; TParallelTag = Parallel_]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4761:30: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5674:9: note: 4761 | _qgramFillSuffixArray(indexSA(qgramIndex), indexText(qgramIndex), indexShape(qgramIndex), indexDir(qgramIndex), qgramIndex.bucketMap, getStepSize(qgramIndex), True(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5674:9: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5674:9: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5674:9: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/index_qgram_parallel.h:438:61: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 438 | sa[atomicPostInc(*bktPtr, parallelTag)] = localPos; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:55, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:71: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/index_qgram_parallel.h:445:65: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 445 | sa[atomicPostInc(*bktPtr, parallelTag)] = localPos; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/index_qgram_parallel.h:472:65: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 472 | sa[atomicPostInc(*bktPtr, parallelTag)] = localPos; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:116, from /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_base.h: In instantiation of ‘void seqan::posLocalize(TResult&, const Pair&, const String&) [with TResult = Pair >; TSize = long unsigned int; TSpec = Alloc<>; T1 = unsigned int; T2 = short unsigned int; TPack = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_base.h:754:16: required from ‘typename seqan::Suffix::Type seqan::suffix(StringSet&, const TPosition&) [with TString = String, Alloc<> >; TSpec = Owner<>; TPosition = Pair >; typename Suffix::Type = Segment, Alloc<> >, SuffixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 754 | posLocalize(lPos, pos, stringSetLimits(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4918:43: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4918 | std::cerr << prefix(suffix(store.readSeqStore, front(indexSA(myIndex))), QGRAM_LENGTH) << " - "; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_base.h:699:12: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 699 | result = pos; | ~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:101: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h: In instantiation of ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Alloc<> >; TValue = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TExpand = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Segment, Alloc<> >, InfixSegment>; TTargetSpec = Alloc<>; TValue = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_owner.h:146:16: required from ‘void seqan::appendValue(StringSet >&, const TString2&, Tag) [with TString = Segment, Alloc<> >, InfixSegment>; TString2 = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 146 | appendValue(me.strings, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = StringSet, Alloc<> >, InfixSegment> >; TValue = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4686:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4686 | appendValue(prefixes, infix(store.readSeqStore[i], 0, length(store.readSeqStore[i]) - cutLength)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1475:37: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1475 | typename Value::Type temp_copy(_value); //temp copy because resize could invalidate _value | ^~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:93: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:126: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h: In instantiation of ‘void seqan::_historyClear(Iter > >&) [with TIndex = Index, Alloc<> >, Owner<> >, IndexSa<> >; TSpec = Preorder]’: /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:292:18: required from ‘void seqan::goRoot(Iter >, VSTree >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void; TSpec = TopDown<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 292 | _historyClear(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:266:10: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 266 | goRoot(*this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: warning: implicitly-declared ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ is deprecated [-Wdeprecated-copy] 2147 | it._parentDesc = value(it); | ~~~~~~~~~~~~~~~^~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:127: /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA >’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = seqan::SimpleType]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:103:8: warning: implicitly-declared ‘constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)’ is deprecated [-Wdeprecated-copy] 103 | struct VertexSA : public VertexEsa | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:125: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:290:17: note: because ‘seqan::VertexEsa’ has user-provided ‘seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]’ 290 | VertexEsa(VertexEsa const &other): | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: synthesized method ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ first required here 2147 | it._parentDesc = value(it); | ~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h: In instantiation of ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String >*>, seqan::InfixSegment>, seqan::Array<4> >; TValue = const seqan::Segment >*>, seqan::InfixSegment>; TExpand = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Segment >*>, InfixSegment>; TTargetSpec = Array<4>; TValue = Segment >*>, InfixSegment>; TExpand = TagLimit_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = String >*>, InfixSegment>, Array<4> >; TValue = Segment >*>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:3625:32: required from ‘void traverseAndSearchCorrections(TTreeIterator, TFragmentStore&, seqan::String&, seqan::String&, FionaOptions&, seqan::Tag, unsigned int, FionaResources&) [with int LOOP_LEVEL = -1; TTreeIterator = seqan::Iter, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >, seqan::VSTree > > >; TFragmentStore = seqan::FragmentStore; TCorrections = CorrectionIndelPos; TValueId = unsigned int; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: 3625 | appendValue(correctCandidates, getOccurrences(iterSibling)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4944:41: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: 4944 | traverseAndSearchCorrections<-1>(myConstrainedIterator, store, correctionList, firstCorrectionForRead, options, alg, maxReadLength, resources); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1475:37: warning: implicitly-declared ‘constexpr seqan::Segment >*>, seqan::InfixSegment>::Segment(const seqan::Segment >*>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1475 | typename Value::Type temp_copy(_value); //temp copy because resize could invalidate _value | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >*>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::Range >*>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h: In instantiation of ‘void seqan::_clear(Iter >&) [with TIndex = Index, Alloc<> >, Owner<> >, IndexSa<> >; TSpec = TopDown<>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2751:9: required from ‘void seqan::clear(Iter >&) [with TIndex = Index, Alloc<> >, Owner<> >, IndexSa<> >; TSpec = TopDown<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2751 | _clear(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:293:10: required from ‘void seqan::goRoot(Iter >, VSTree >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void; TSpec = TopDown<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 293 | clear(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:266:10: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 266 | goRoot(*this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2745:27: warning: implicitly-declared ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ is deprecated [-Wdeprecated-copy] 2745 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA >’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = seqan::SimpleType]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1481:31: required from ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Alloc<> >; TValue = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: 1481 | valueConstruct(begin(me, Standard()) + me_length, temp_copy); //??? this should be valueMoveConstruct /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Segment, Alloc<> >, InfixSegment>; TTargetSpec = Alloc<>; TValue = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_owner.h:146:16: required from ‘void seqan::appendValue(StringSet >&, const TString2&, Tag) [with TString = Segment, Alloc<> >, InfixSegment>; TString2 = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: 146 | appendValue(me.strings, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = StringSet, Alloc<> >, InfixSegment> >; TValue = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4686:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: 4686 | appendValue(prefixes, infix(store.readSeqStore[i], 0, length(store.readSeqStore[i]) - cutLength)); /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h: In instantiation of ‘void seqan::_clear(Iter >&) [with TIndex = Index, Alloc<> >, Owner<> >, IndexSa<> >; TSpec = TopDown >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2751:9: required from ‘void seqan::clear(Iter >&) [with TIndex = Index, Alloc<> >, Owner<> >, IndexSa<> >; TSpec = TopDown >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2751 | _clear(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2774:10: required from ‘void seqan::goNextImpl(Iter > > >&, VSTreeIteratorTraits) [with TIndex = Index, Alloc<> >, Owner<> >, IndexSa<> >; TSpec = Preorder; THideEmptyEdges = True]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2774 | clear(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2052:13: required from ‘void seqan::goNext(Iter >&, TTraits) [with TIndex = Index, Alloc<> >, Owner<> >, IndexSa<> >; TSpec = TopDown >; TTraits = Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2052 | goNextImpl(it, traits); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2047:9: required from ‘void seqan::goNext(Iter >&) [with TIndex = Index, Alloc<> >, Owner<> >, IndexSa<> >; TSpec = TopDown >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2047 | goNext(it, typename GetVSTreeIteratorTraits< Iter > >::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:3526:19: required from ‘void traverseAndSearchCorrections(TTreeIterator, TFragmentStore&, seqan::String&, seqan::String&, FionaOptions&, seqan::Tag, unsigned int, FionaResources&) [with int LOOP_LEVEL = -1; TTreeIterator = seqan::Iter, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >, seqan::VSTree > > >; TFragmentStore = seqan::FragmentStore; TCorrections = CorrectionIndelPos; TValueId = unsigned int; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3526 | goNext(iter); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4944:41: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 4944 | traverseAndSearchCorrections<-1>(myConstrainedIterator, store, correctionList, firstCorrectionForRead, options, alg, maxReadLength, resources); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2745:27: warning: implicitly-declared ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ is deprecated [-Wdeprecated-copy] 2745 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA >’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = seqan::SimpleType]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Segment >*>, seqan::InfixSegment>*; TParam = seqan::Segment >*>, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Segment >*>, InfixSegment>*; TParam = Segment >*>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1481:31: required from ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String >*>, seqan::InfixSegment>, seqan::Array<4> >; TValue = const seqan::Segment >*>, seqan::InfixSegment>; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: 1481 | valueConstruct(begin(me, Standard()) + me_length, temp_copy); //??? this should be valueMoveConstruct /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Segment >*>, InfixSegment>; TTargetSpec = Array<4>; TValue = Segment >*>, InfixSegment>; TExpand = TagLimit_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = String >*>, InfixSegment>, Array<4> >; TValue = Segment >*>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:3625:32: required from ‘void traverseAndSearchCorrections(TTreeIterator, TFragmentStore&, seqan::String&, seqan::String&, FionaOptions&, seqan::Tag, unsigned int, FionaResources&) [with int LOOP_LEVEL = -1; TTreeIterator = seqan::Iter, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >, seqan::VSTree > > >; TFragmentStore = seqan::FragmentStore; TCorrections = CorrectionIndelPos; TValueId = unsigned int; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: 3625 | appendValue(correctCandidates, getOccurrences(iterSibling)); /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4944:41: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: 4944 | traverseAndSearchCorrections<-1>(myConstrainedIterator, store, correctionList, firstCorrectionForRead, options, alg, maxReadLength, resources); /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘constexpr seqan::Segment >*>, seqan::InfixSegment>::Segment(const seqan::Segment >*>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >*>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::Range >*>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1925:45: required from ‘static typename seqan::Size::Type seqan::_Resize_String::resize_(T&, typename seqan::Size::Type, const TValue&) [with T = seqan::String, seqan::Alloc<> >; TValue = seqan::SimpleType; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1925 | TSize new_capacity = reserve(me, new_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1964:50: required from ‘typename seqan::Size >::Type seqan::resize(String&, TSize, const TValue2&, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long unsigned int; TValue2 = SimpleType; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1964 | return _Resize_String >::resize_(me, new_length, val); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2153:18: required from ‘typename seqan::Size::Type seqan::resize(T&, TSize, const TValue&) [with T = String, Alloc<> >; TSize = long unsigned int; TValue = SimpleType; typename Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2153 | return resize(me, new_length, val, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:842:19: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 842 | resize(kmer, length(shape), (TValue)x); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1444:21: required from ‘void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1444 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1465:31: required from ‘void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1465 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:849:31: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String, seqan::Alloc<> >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 849 | arrayConstructMove(old_array, old_array + start, seq_array); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: required from ‘typename seqan::Size >::Type seqan::_clearSpace(String&, TSize, TPosition, TPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long unsigned int; TPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1014 | return ClearSpaceStringBase_ >::_clearSpace_(me, size, pos_begin, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1048:30: required from ‘typename seqan::Size >::Type seqan::resizeSpace(String&, TSize, TBeginPosition, TEndPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = int; TBeginPosition = short unsigned int; TEndPosition = int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1048 | TSize_ ret_ = _clearSpace( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^ 1049 | me, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~ 1050 | static_cast(size), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 1051 | static_cast(pos_begin), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1052 | static_cast(pos_end), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1053 | tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2212:23: required from ‘TSize seqan::resizeSpace(T&, TSize, TBeginPosition, TEndPosition) [with T = String, Alloc<> >; TSize = int; TBeginPosition = short unsigned int; TEndPosition = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2212 | return resizeSpace(me, size, pos_begin, pos_end, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2267:16: required from ‘void seqan::erase(T&, TBeginPosition, TEndPosition) [with T = String, Alloc<> >; TBeginPosition = short unsigned int; TEndPosition = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2267 | resizeSpace(me, 0, pos, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:1958:22: required from ‘unsigned int applyReadErrorCorrections(const seqan::String&, seqan::String&, TReadStore&, FionaOptions&) [with TCorrection = CorrectionIndelPos; TValue = unsigned int; TReadStore = seqan::FragmentStore]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1958 | erase(store.readSeqStore[readId], possibleCorrections[correction].errorPos, possibleCorrections[correction].errorPos + possibleCorrections[correction].indelLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5019:46: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 5019 | totalCorrections = applyReadErrorCorrections(correctionList,firstCorrectionForRead,store,options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1589:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1589 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:129: /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/sequence/iterator_range.h: In instantiation of ‘void seqan::assign(Range&, Pipe&) [with TIterator = Pair >*; TInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TPipeSpec = Multi >, String > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/sequence/iterator_range.h:359:11: required from ‘void seqan::operator<<(Range&, Pipe&) [with TIterator = Pair >*; TInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TPipeSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 359 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = Range >*>; TString = String, Alloc<> >; TSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 110 | suffixArray << creator; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = Range >*>; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = Range >*>; TText = StringSet, Alloc<> >, Owner<> >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/sequence/iterator_range.h:350:15: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 350 | *_cur = *src; | ~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveBackwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1641:30: required from ‘void seqan::arrayMoveBackward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1641 | _arrayMoveBackwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1213:26: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = SimpleType*; TSource1 = SimpleType*; TSource2 = SimpleType*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1213 | arrayMoveBackward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1660:14: required from ‘void seqan::_arrayClearSpacePointer(TValue*, size_t, size_t, size_t, const True&) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1660 | arrayMove(array_begin + keep_from, array_begin + array_length, array_begin + move_to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1681:28: required from ‘void seqan::arrayClearSpace(TValue*, size_t, size_t, size_t) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1681 | _arrayClearSpacePointer(array_begin, array_length, keep_from, move_to, typename IsSimple::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:856:28: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1048:30: required from ‘typename seqan::Size >::Type seqan::resizeSpace(String&, TSize, TBeginPosition, TEndPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = int; TBeginPosition = short unsigned int; TEndPosition = int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1048 | TSize_ ret_ = _clearSpace( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^ 1049 | me, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~ 1050 | static_cast(size), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 1051 | static_cast(pos_begin), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1052 | static_cast(pos_end), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1053 | tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2212:23: required from ‘TSize seqan::resizeSpace(T&, TSize, TBeginPosition, TEndPosition) [with T = String, Alloc<> >; TSize = int; TBeginPosition = short unsigned int; TEndPosition = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2212 | return resizeSpace(me, size, pos_begin, pos_end, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2267:16: required from ‘void seqan::erase(T&, TBeginPosition, TEndPosition) [with T = String, Alloc<> >; TBeginPosition = short unsigned int; TEndPosition = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2267 | resizeSpace(me, 0, pos, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:1958:22: required from ‘unsigned int applyReadErrorCorrections(const seqan::String&, seqan::String&, TReadStore&, FionaOptions&) [with TCorrection = CorrectionIndelPos; TValue = unsigned int; TReadStore = seqan::FragmentStore]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1958 | erase(store.readSeqStore[readId], possibleCorrections[correction].errorPos, possibleCorrections[correction].errorPos + possibleCorrections[correction].indelLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5019:46: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5019 | totalCorrections = applyReadErrorCorrections(correctionList,firstCorrectionForRead,store,options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1621:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1621 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:98: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h: In instantiation of ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = Range >*>; TString = String, Alloc<> >; TSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 108 | creator_t creator(unsigner, stringSetLimits(stringSet)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = Range >*>; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = Range >*>; TText = StringSet, Alloc<> >, Owner<> >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:347:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 347 | o1.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:357:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 357 | o0.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:361:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | o3.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:365:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 365 | o5.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:369:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 369 | o6.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:395:125: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 395 | /* 6 */ cp___(o6,0, *textIn); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:398:126: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 398 | /* 5 */ cp___(o5,0,cp___(o6,1, *textIn)); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:401:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 401 | /* 4 */ o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:405:127: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 405 | /* 3 */ cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:408:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 408 | /* 2 */ o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:412:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 412 | /* 1 */ o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:424:128: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 424 | /* 0 */ cp___(o0,0,cp___(o1,1,cp___(o2,2,cp___(o3,3, *textIn)))); ++textIn; o0.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:426:129: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 426 | /* 6 */ cp___(o0,1,cp___(o1,2,cp___(o2,3,cp___(o3,4, cp___(o6,0, *textIn))))); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:428:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 428 | /* 5 */ cp___(o0,2,cp___(o1,3,cp___(o2,4,cp___(o3,5, cp___(o5,0,cp___(o6,1, *textIn)))))); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:430:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 430 | /* 4 */ o0.i2[0] = o1.i2[1] = o2.i2[2] = o3.i2[2] = o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:435:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 435 | /* 3 */ cp___(o0,4,cp___(o1,5, cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:437:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 437 | /* 2 */ o0.i2[1] = o1.i2[2] = o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:441:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 441 | /* 1 */ o0.i2[2] = o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:454:128: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 454 | /* 0 */ cp___(o0,0,cp___(o1,1,cp___(o2,2,cp___(o3,3, *textIn)))); ++textIn; o0.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:456:129: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 456 | /* 6 */ cp___(o0,1,cp___(o1,2,cp___(o2,3,cp___(o3,4, cp___(o6,0, *textIn))))); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:458:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 458 | /* 5 */ cp___(o0,2,cp___(o1,3,cp___(o2,4,cp___(o3,5, cp___(o5,0,cp___(o6,1, *textIn)))))); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:460:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 460 | /* 4 */ o0.i2[0] = o1.i2[1] = o2.i2[2] = o3.i2[2] = o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:465:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 465 | /* 3 */ cp___(o0,4,cp___(o1,5, cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:467:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 467 | /* 2 */ o0.i2[1] = o1.i2[2] = o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:471:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 471 | /* 1 */ o0.i2[2] = o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:56: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::setHost(PairIncrementer_&, const TLimits2&) [with TPair = Pair >; TLimits = String >; TLimits2 = String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:382:10: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 382 | setHost(p, limits); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = Range >*>; TString = String, Alloc<> >; TSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 108 | creator_t creator(unsigner, stringSetLimits(stringSet)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = Range >*>; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:1032:16: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1032 | me.pos = TPair(0, 0); | ~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::pop(Pipe&, TValue&) [with TInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >, Skew7>; TSpec = Counter; TValue = Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_separator7.h:62:7: required from ‘void seqan::_skew7SeparateSlices(TInput&, const TFunctor&, TOut1&, TOut2&, TOut4&) [with TInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >, Skew7>, Counter>; TFunctor = _skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > >; TOut1 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut2 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut4 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 62 | pop(in, i); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:386:26: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 386 | _skew7SeparateSlices( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^ 387 | renamer, func_slice, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~ 388 | names_S1, names_S2, names_S4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = Range >*>; TString = String, Alloc<> >; TSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 108 | creator_t creator(unsigner, stringSetLimits(stringSet)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = Range >*>; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:619:14: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 619 | Ref_ = *me; | ~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:218:12: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = Range >*>; TString = String, Alloc<> >; TSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 218 | struct Pipe< TInput, Multi > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = Range >*>; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:65: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h: In instantiation of ‘seqan::Pipe >, TPair, TLimitsString> >& seqan::Pipe >, TPair, TLimitsString> >::operator++() [with TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPair = seqan::Pair >; TLimitsString = seqan::String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:317:20: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 317 | sorter << sampler; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:599:20: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 599 | tmp.i1 = localPos; | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:324:41: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 324 | TNames_Sliced names_sliced; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::pop(TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:925:24: required from ‘void seqan::Pool::pop(TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 925 | reader->pop(Ref_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1159:15: required from ‘void seqan::pop(Pool&, TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1159 | me.pop(Ref_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_separator7.h:62:7: required from ‘void seqan::_skew7SeparateSlices(TInput&, const TFunctor&, TOut1&, TOut2&, TOut4&) [with TInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TFunctor = _skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > >; TOut1 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut2 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut4 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 62 | pop(in, i); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:342:25: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 342 | _skew7SeparateSlices( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^ 343 | names_sliced, func_slice, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~ 344 | names_S1, names_S2, names_S4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:926:18: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 926 | Ref_ = *cur; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 5, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:414:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 414 | if (r >= 6) push(out6, o6); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 5, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 4, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:415:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 415 | if (r >= 5) push(out5, o5); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 4, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:432:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 432 | if (r >= 3) push(out3, o3); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:443:9: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 443 | push(out0, o0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:243:12: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 243 | struct Pipe< TInput, Skew7 > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >, seqan::Tag >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T = seqan::SimpleType; unsigned int SIZE = 6; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:404:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 404 | _copy(inValue[0], *in.in1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/sequence/iterator_range.h:349:104: required from ‘void seqan::assign(Range&, Pipe&) [with TIterator = Pair >*; TInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TPipeSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 349 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/sequence/iterator_range.h:359:11: required from ‘void seqan::operator<<(Range&, Pipe&) [with TIterator = Pair >*; TInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TPipeSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 359 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:385:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 385 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: ‘struct seqan::Pair >’ declared here 95 | struct Pair | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >, seqan::Tag >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T = seqan::SimpleType; unsigned int SIZE = 4; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:422:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 422 | _copy(inValue[5], *in.in3); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/sequence/iterator_range.h:349:104: required from ‘void seqan::assign(Range&, Pipe&) [with TIterator = Pair >*; TInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TPipeSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 349 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/sequence/iterator_range.h:359:11: required from ‘void seqan::operator<<(Range&, Pipe&) [with TIterator = Pair >*; TInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TPipeSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 359 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:385:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 385 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: ‘struct seqan::Pair >’ declared here 95 | struct Pair | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >, seqan::Tag >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T = seqan::SimpleType; unsigned int SIZE = 5; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:431:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 431 | _copy(inValue[6], *in.in4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/sequence/iterator_range.h:349:104: required from ‘void seqan::assign(Range&, Pipe&) [with TIterator = Pair >*; TInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TPipeSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 349 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/sequence/iterator_range.h:359:11: required from ‘void seqan::operator<<(Range&, Pipe&) [with TIterator = Pair >*; TInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TPipeSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 359 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:385:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 385 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: ‘struct seqan::Pair >’ declared here 95 | struct Pair | ^~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:64: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘const typename seqan::Value > >::Type& seqan::Pipe >::operator*() [with TInput = seqan::Pool >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NCompMulti >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>; typename seqan::Value > >::Type = seqan::Pair >, long unsigned int, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:148:22: required from ‘const typename seqan::Value > >::Type seqan::Pipe >::operator*() const [with TInput = seqan::Pipe >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int> > >; TFunctor = seqan::_skew7GlobalSlicedMulti >, long unsigned int, seqan::Tag >, seqan::String >, long unsigned int, seqan::Pair > >; typename seqan::Value > >::Type = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 148 | return F(*in); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:24: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 328 | names_sliced << slicedPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:134:20: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 134 | tmp.i1 = getValueI1(*in); | ~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NCompMulti >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int> > >; TFunctor = seqan::_skew7GlobalSlicedMulti >, long unsigned int, seqan::Tag >, seqan::String >, long unsigned int, seqan::Pair > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 153 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | names_sliced << slicedPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:143:22: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >& seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 143 | last = *in; | ~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple, 7, seqan::BitPacked<> >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_separator7.h:64:9: required from ‘void seqan::_skew7SeparateSlices(TInput&, const TFunctor&, TOut1&, TOut2&, TOut4&) [with TInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TFunctor = _skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > >; TOut1 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut2 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut4 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 64 | push(out4, i); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:342:25: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 342 | _skew7SeparateSlices( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^ 343 | names_sliced, func_slice, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~ 344 | names_S1, names_S2, names_S4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_separator7.h:64:9: required from ‘void seqan::_skew7SeparateSlices(TInput&, const TFunctor&, TOut1&, TOut2&, TOut4&) [with TInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TFunctor = _skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > >; TOut1 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut2 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut4 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 64 | push(out4, i); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:342:25: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 342 | _skew7SeparateSlices( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^ 343 | names_sliced, func_slice, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~ 344 | names_S1, names_S2, names_S4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TSpec = MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:416:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 416 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TSpec = MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:416:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 416 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:317:20: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >& seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple, 7, seqan::BitPacked<> >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘bool seqan::control(Pipe >&, const ControlBeginRead&) [with TInput = Pool >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >; TCompare = _skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int>; ControlBeginRead = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:651:23: required from ‘bool seqan::control(Pipe&, const TCommand&) [with TInput = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >; TSpec = Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > >; TCommand = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 651 | return control(me.in, command); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >; TSpec = Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:164:21: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >& seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 164 | me.last = *me.in; | ~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple, 7, seqan::BitPacked<> >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:165:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 165 | me.tmp.i1 = me.last.i1; | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Pair >; TConfig = MapperConfigSize >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:401:106: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 401 | /* 4 */ o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:341:41: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 341 | TNames_Sliced names_sliced(map_sliced); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NComp >, seqan::Tag >, int>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:345:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 345 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:143:22: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 143 | last = *in; | ~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:352:45: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 352 | TNames_Linear_Unique names_linear(map_linear); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:161:29: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 161 | if (r >= 6) push(out6, o6); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:162:29: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 162 | if (r >= 5) push(out5, o5); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:179:29: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 179 | if (r >= 3) push(out3, o3); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:190:17: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 190 | push(out0, o0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:173:12: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 173 | struct Pipe< TInput, Skew3 > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::setHost(PairDecrementer_&, const TLimits2&) [with TPair = Pair >; TLimits = String >; unsigned int m = 7; TLimits2 = String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:537:11: required from ‘void seqan::Pipe >, TPair, TLimitsString> >::prepare() [with TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPair = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 537 | setHost(localPos, limits); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:613:19: required from ‘bool seqan::control(Pipe, TPair, TLimitsString> >&, const ControlBeginRead&) [with TInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; unsigned int m = 7; TPack = BitPacked<>; TPair = Pair >; TLimitsString = String >; ControlBeginRead = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 613 | me.prepare(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, Pair >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:1119:16: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1119 | me.pos = TPair(0, 0); | ~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h: In instantiation of ‘void seqan::Pipe >, TPair, TLimitsString> >::fill() [with TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPair = seqan::Pair >; TLimitsString = seqan::String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:544:13: required from ‘void seqan::Pipe >, TPair, TLimitsString> >::prepare() [with TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Owner<> > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPair = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 544 | fill(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:613:19: required from ‘bool seqan::control(Pipe, TPair, TLimitsString> >&, const ControlBeginRead&) [with TInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; unsigned int m = 7; TPack = BitPacked<>; TPair = Pair >; TLimitsString = String >; ControlBeginRead = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 613 | me.prepare(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, Pair >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:557:32: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 557 | tmp.i1 = localPos; | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = short unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘bool seqan::control(Pipe >&, const ControlBeginRead&) [with TInput = Pool >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >; TCompare = _skew7NComp >, Tag >, int>; ControlBeginRead = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pool >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >; TSpec = Namer<_skew7NComp >, Tag >, int> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:345:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 345 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:164:21: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 164 | me.last = *me.in; | ~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h: In instantiation of ‘TResult seqan::_skew7NComp::operator()(const TValue&, const TValue&) const [with TValue = seqan::Pair >, seqan::Tag >; TResult = int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:141:30: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NComp >, seqan::Tag >, int>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 141 | if (!eof(in) && C(last, *in) != 0) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:345:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 345 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:74:43: warning: taking address of packed member of ‘seqan::Tuple >’ may result in an unaligned pointer value [-Waddress-of-packed-member] 74 | const TStoredValue *sa = a.i2.i; | ~~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: taking address of packed member of ‘seqan::Tuple >’ may result in an unaligned pointer value [-Waddress-of-packed-member] 75 | const TStoredValue *sb = b.i2.i; | ~~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:163:29: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 163 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:163:29: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 163 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Pair >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >, Sampler<7, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >, Sampler<7, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >, Sampler<7, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:335:20: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Pair >; TConfig = MapperConfigSize<_skew7NMapLinear >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:148:104: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 148 | /* 4 */ o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn).i2; ++nameIn; o4.i1 = p--; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:247:41: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 247 | TNames_Sliced names_sliced(map_sliced); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 218 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:376:34: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TCompare = seqan::_skew3NComp >, seqan::Tag >, int>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:251:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 251 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 218 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:376:34: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:143:22: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 143 | last = *in; | ~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:259:45: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 259 | TNames_Linear_Unique names_linear(map_linear); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 218 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:376:34: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple, Tag >; TSpec = SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender3.h:123:17: required from ‘bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 123 | push(out0, o0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:269:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 269 | _skew3Extend(textIn, names_linear, sortedS0, sortedS12); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 218 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:376:34: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:59: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h: In instantiation of ‘const typename seqan::StoredTupleValue_::Type& seqan::Tuple >::operator[](TPos) const [with TPos = int; TValue = long unsigned int; unsigned int SIZE = 6; typename seqan::StoredTupleValue_::Type = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:124:27: required from ‘bool seqan::CompareSkewDCStream::operator()(const seqan::SkewDCStream&, const seqan::SkewDCStream&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 124 | if (a.i.i3[i] < b.i.i3[i]) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:307:23: required from ‘void seqan::Pipe, seqan::Merger7>::insertStream(unsigned int) [with TInput0 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 307 | if (!streamGreater(inValue[stream],inValue[rank[right]])) break; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:319:4: required from ‘seqan::Pipe, seqan::Merger7>& seqan::Pipe, seqan::Merger7>::operator++() [with TInput0 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 319 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:440:13: required from ‘seqan::Pipe& seqan::Pipe::operator++() [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 440 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_counter.h:105:13: required from ‘seqan::Pipe& seqan::Pipe::operator++() [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >, seqan::Skew7>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 105 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:620:9: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: returning reference to temporary [-Wreturn-local-addr] 171 | return i[k]; | ~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:446:6: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 446 | ++in.in5; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘bool seqan::control(Pipe >&, const ControlBeginRead&) [with TInput = Pool >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >; TCompare = _skew3NComp >, Tag >, int>; ControlBeginRead = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pool >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >; TSpec = Namer<_skew3NComp >, Tag >, int> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:251:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 251 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:164:21: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 164 | me.last = *me.in; | ~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h: In instantiation of ‘TResult seqan::_skew3NComp::operator()(const TValue&, const TValue&) const [with TValue = seqan::Pair >, seqan::Tag >; TResult = int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:141:30: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TCompare = seqan::_skew3NComp >, seqan::Tag >, int>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 141 | if (!eof(in) && C(last, *in) != 0) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:251:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 251 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:74:43: warning: taking address of packed member of ‘seqan::Tuple >’ may result in an unaligned pointer value [-Waddress-of-packed-member] 74 | const TStoredValue *sa = a.i2.i; | ~~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: taking address of packed member of ‘seqan::Tuple >’ may result in an unaligned pointer value [-Waddress-of-packed-member] 75 | const TStoredValue *sb = b.i2.i; | ~~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple, Tag >; TSpec = MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender3.h:101:17: required from ‘bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 101 | push(out12, o2); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:269:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 269 | _skew3Extend(textIn, names_linear, sortedS0, sortedS12); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple, Tag >; TSpec = MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender3.h:101:17: required from ‘bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 101 | push(out12, o2); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:269:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 269 | _skew3Extend(textIn, names_linear, sortedS0, sortedS12); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Pair >; TConfig = MapperConfigSize<_skew7NMapSliced >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >; TFunctor = seqan::filterI2 >, long unsigned int>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 153 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_lss.h:415:29: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Pair >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >, Sampler<3> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >, Sampler<3> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >, Sampler<3> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:241:20: [ skipping 11 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Pair >; TConfig = MapperConfigSize<_skew3NMapLinear >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender3.h:86:38: required from ‘bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 86 | o2.i2[0] = (*nameIn).i2; ++nameIn; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:269:29: [ skipping 11 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended, Tuple >, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer, seqan::Tuple >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:301:6: required from ‘void seqan::Pipe, seqan::Merger7>::insertStream(unsigned int) [with TInput0 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 301 | ++in.in5; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:319:4: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Pair >; TConfig = MapperConfigSize<_skew3NMapSliced >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: [ skipping 13 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple, Tag >; TConfig = MapperConfigSize<_skew3NMapExtended, Tuple, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer, seqan::Tuple, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger3.h:111:17: required from ‘seqan::Pipe, seqan::Merger3>& seqan::Pipe, seqan::Merger3>::operator++() [with TInput0 = seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TInput12 = seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 111 | ++in.in2; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:329:13: [ skipping 15 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h: In instantiation of ‘const typename seqan::StoredTupleValue_::Type& seqan::Tuple >::operator[](TPos) const [with TPos = unsigned int; TValue = long unsigned int; unsigned int SIZE = 6; typename seqan::StoredTupleValue_::Type = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:191:25: required from ‘TResult seqan::_skew7ExtendComp::operator()(const TValue&, const TValue&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; unsigned int EXT_LENGTH = 3; TResult = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 191 | if (a.i3[i] == b.i3[i]) continue; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:50:21: required from ‘bool seqan::MergeStreamComparer::operator()(const seqan::PageBucket&, const seqan::PageBucket&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; Compare = seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 3, int>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 50 | return C(static_cast(*(a.cur)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 51 | static_cast(*(b.cur))) > 0; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:356:13: required from ‘void seqan::_adjustHeapTowardLeaves(PriorityType&, TValue, TSize, TSize) [with TValue = PageBucketExtended, Tuple >, Tag > >; TLess = MergeStreamComparer, Tuple >, Tag >, _skew7ExtendComp, Tuple >, Tag >, 3, int> >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 356 | if ( less ( element, me.heap[i] ) ) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:335:26: required from ‘void seqan::pop(PriorityType&) [with TValue = PageBucketExtended, Tuple >, Tag > >; TLess = MergeStreamComparer, Tuple >, Tag >, _skew7ExtendComp, Tuple >, Tag >, 3, int> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 335 | _adjustHeapTowardLeaves(me, element, 0, 2 ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18: required from ‘void seqan::Handler, seqan::Tag >::pop() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TPoolSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 311 | ::seqan::pop(pqueue); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24: [ skipping 15 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: returning reference to temporary [-Wreturn-local-addr] 171 | return i[k]; | ~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h: In instantiation of ‘const typename seqan::StoredTupleValue_::Type& seqan::Tuple >::operator[](TPos) const [with TPos = unsigned int; TValue = long unsigned int; unsigned int SIZE = 4; typename seqan::StoredTupleValue_::Type = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:191:25: required from ‘TResult seqan::_skew7ExtendComp::operator()(const TValue&, const TValue&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; unsigned int EXT_LENGTH = 1; TResult = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 191 | if (a.i3[i] == b.i3[i]) continue; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:50:21: required from ‘bool seqan::MergeStreamComparer::operator()(const seqan::PageBucket&, const seqan::PageBucket&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; Compare = seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 1, int>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 50 | return C(static_cast(*(a.cur)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 51 | static_cast(*(b.cur))) > 0; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:356:13: required from ‘void seqan::_adjustHeapTowardLeaves(PriorityType&, TValue, TSize, TSize) [with TValue = PageBucketExtended, Tuple >, Tag > >; TLess = MergeStreamComparer, Tuple >, Tag >, _skew7ExtendComp, Tuple >, Tag >, 1, int> >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 356 | if ( less ( element, me.heap[i] ) ) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:335:26: required from ‘void seqan::pop(PriorityType&) [with TValue = PageBucketExtended, Tuple >, Tag > >; TLess = MergeStreamComparer, Tuple >, Tag >, _skew7ExtendComp, Tuple >, Tag >, 1, int> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 335 | _adjustHeapTowardLeaves(me, element, 0, 2 ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18: required from ‘void seqan::Handler, seqan::Tag >::pop() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TPoolSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 311 | ::seqan::pop(pqueue); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24: [ skipping 15 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: returning reference to temporary [-Wreturn-local-addr] 171 | return i[k]; | ~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h: In instantiation of ‘const typename seqan::StoredTupleValue_::Type& seqan::Tuple >::operator[](TPos) const [with TPos = unsigned int; TValue = long unsigned int; unsigned int SIZE = 5; typename seqan::StoredTupleValue_::Type = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:191:25: required from ‘TResult seqan::_skew7ExtendComp::operator()(const TValue&, const TValue&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; unsigned int EXT_LENGTH = 2; TResult = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 191 | if (a.i3[i] == b.i3[i]) continue; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:50:21: required from ‘bool seqan::MergeStreamComparer::operator()(const seqan::PageBucket&, const seqan::PageBucket&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; Compare = seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 2, int>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 50 | return C(static_cast(*(a.cur)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 51 | static_cast(*(b.cur))) > 0; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:356:13: required from ‘void seqan::_adjustHeapTowardLeaves(PriorityType&, TValue, TSize, TSize) [with TValue = PageBucketExtended, Tuple >, Tag > >; TLess = MergeStreamComparer, Tuple >, Tag >, _skew7ExtendComp, Tuple >, Tag >, 2, int> >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 356 | if ( less ( element, me.heap[i] ) ) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:335:26: required from ‘void seqan::pop(PriorityType&) [with TValue = PageBucketExtended, Tuple >, Tag > >; TLess = MergeStreamComparer, Tuple >, Tag >, _skew7ExtendComp, Tuple >, Tag >, 2, int> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 335 | _adjustHeapTowardLeaves(me, element, 0, 2 ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18: required from ‘void seqan::Handler, seqan::Tag >::pop() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TPoolSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 311 | ::seqan::pop(pqueue); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24: [ skipping 15 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Owner<> >; TSpec = IndexSa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/../../extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc<> >, Owner<> >; TIndexSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:422:16: required from ‘seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner<> >, seqan::IndexSa<> >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 422 | TBase(_index) {} /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ^ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:4925:24: required from ‘unsigned int correctReads(TFragmentStore&, FionaOptions&, seqan::Tag) [with TFragmentStore = seqan::FragmentStore; TAlgorithm = FionaPoisson_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 4925 | TConstrainedIterator myConstrainedIterator(myIndex); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:5592:44: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 5592 | numCorrected = correctReads(store, options, FionaPoisson()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: returning reference to temporary [-Wreturn-local-addr] 171 | return i[k]; | ~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h: In function ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:142:117: warning: this statement may fall through [-Wimplicit-fallthrough=] 142 | /* 6 */ cp___(o6,0, *textIn); ++textIn; o6.i1 = p--; | ~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:144:9: note: here 144 | case 5: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:145:118: warning: this statement may fall through [-Wimplicit-fallthrough=] 145 | /* 5 */ cp___(o5,0,cp___(o6,1, *textIn)); ++textIn; o5.i1 = p--; | ~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:147:9: note: here 147 | case 4: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:149:103: warning: this statement may fall through [-Wimplicit-fallthrough=] 149 | cp___(o4,0,cp___(o5,1,cp___(o6,2, *textIn))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:151:9: note: here 151 | case 3: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:152:119: warning: this statement may fall through [-Wimplicit-fallthrough=] 152 | /* 3 */ cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))); ++textIn; o3.i1 = p--; | ~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:154:9: note: here 154 | case 2: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:156:105: warning: this statement may fall through [-Wimplicit-fallthrough=] 156 | cp___(o2,0,cp___(o3,1,cp___(o4,2,cp___(o5,3,cp___(o6,4, *textIn))))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:158:9: note: here 158 | case 1: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h: In function ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> >, Owner<> > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:395:130: warning: this statement may fall through [-Wimplicit-fallthrough=] 395 | /* 6 */ cp___(o6,0, *textIn); ++textIn; o6.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:397:25: note: here 397 | case 5: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:398:131: warning: this statement may fall through [-Wimplicit-fallthrough=] 398 | /* 5 */ cp___(o5,0,cp___(o6,1, *textIn)); ++textIn; o5.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:400:25: note: here 400 | case 4: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:402:162: warning: this statement may fall through [-Wimplicit-fallthrough=] 402 | cp___(o4,0,cp___(o5,1,cp___(o6,2, *textIn))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:404:25: note: here 404 | case 3: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:405:132: warning: this statement may fall through [-Wimplicit-fallthrough=] 405 | /* 3 */ cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))); ++textIn; o3.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:407:25: note: here 407 | case 2: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:409:138: warning: this statement may fall through [-Wimplicit-fallthrough=] 409 | cp___(o2,0,cp___(o3,1,cp___(o4,2,cp___(o5,3,cp___(o6,4, *textIn))))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:411:25: note: here 411 | case 1: | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:64, from /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona/fiona.cpp:121: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h: In member function ‘void seqan::SequenceStreamImpl_::_guessFileTypeAndFormatForReadingAndInitialize()’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:310:25: warning: this statement may fall through [-Wimplicit-fallthrough=] 310 | _fileFormat = this->_checkFormat(*_istreamReader); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:313:9: note: here 313 | case SeqIOFileType_::FILE_TYPE_AUTO: | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/parallel/compiletime_settings.h:33, from /usr/include/c++/14/parallel/parallel.h:37, from /usr/include/c++/14/parallel/base.h:40, from /usr/include/c++/14/parallel/algobase.h:40, from /usr/include/c++/14/bits/stl_algobase.h:2330, from /usr/include/c++/14/string:51: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int> > >(seqan::PriorityType >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, unsigned long>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:423:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, unsigned long>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int> > >(seqan::PriorityType >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, unsigned long>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:432:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, unsigned long>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended, seqan::Tuple >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended, seqan::Tuple >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, seqan::Tuple >, seqan::Tag > >, void, unsigned long>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 1u, int> > >(seqan::PriorityType, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 1u, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned long>, unsigned long, seqan::File > > > > >, seqan::Merger7>::insertStream(unsigned int)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:279:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned long>, unsigned long, seqan::File > > > > >, seqan::Merger7>::insertStream(unsigned int)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended, seqan::Tuple >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended, seqan::Tuple >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, seqan::Tuple >, seqan::Tag > >, void, unsigned long>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 2u, int> > >(seqan::PriorityType, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 2u, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned long>, unsigned long, seqan::File > > > > >, seqan::Merger7>::insertStream(unsigned int)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:289:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned long>, unsigned long, seqan::File > > > > >, seqan::Merger7>::insertStream(unsigned int)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate, seqan::Tuple, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended, seqan::Tuple, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended, seqan::Tuple, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, seqan::Tuple, seqan::Tag > >, void, unsigned long>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Tuple, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, seqan::Tuple, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Tuple, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, seqan::Tuple, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, seqan::Tuple, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, seqan::Tuple, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, seqan::Tuple, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Tuple, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, seqan::Tuple, seqan::Tag > >, seqan::Alloc > >(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, seqan::Size, seqan::Tuple, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size, seqan::Tuple, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, seqan::Tuple, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Tuple, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop, seqan::Tuple, seqan::Tag > >, seqan::MergeStreamComparer, seqan::Tuple, seqan::Tag >, seqan::_skew3ExtendComp, seqan::Tuple, seqan::Tag >, int> > >(seqan::PriorityType, seqan::Tuple, seqan::Tag > >, seqan::MergeStreamComparer, seqan::Tuple, seqan::Tag >, seqan::_skew3ExtendComp, seqan::Tuple, seqan::Tag >, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned long>, unsigned long, seqan::File > > > > >, seqan::Merger3>::operator++() [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger3.h:127:17: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned long>, unsigned long, seqan::File > > > > >, seqan::Merger3>::operator++() [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tag >, seqan::_skew7NComp >, seqan::Tag >, int> > >(seqan::PriorityType >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tag >, seqan::_skew7NComp >, seqan::Tag >, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘seqan::append >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > >, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > > >(seqan::Pool >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >&, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >&)bool [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘seqan::append >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > >, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > > >(seqan::Pool >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >&, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >&)bool [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tag >, seqan::_skew3NComp >, seqan::Tag >, int> > >(seqan::PriorityType >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tag >, seqan::_skew3NComp >, seqan::Tag >, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘seqan::append >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > >, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > > >(seqan::Pool >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >&, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > >, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > > >(seqan::Pool >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >&, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > >, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > > >(seqan::Pool >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >&, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >&)bool [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘seqan::assign >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > >, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > > >(seqan::Pool >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >&, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >&)bool [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7NCompMulti >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >(seqan::PriorityType >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7NCompMulti >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned long, seqan::Tag >, seqan::String >, unsigned long, seqan::Pair > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13, inlined from ‘seqan::append >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > >, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned long, seqan::Tag >, seqan::String >, unsigned long, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned long, seqan::Tag >, seqan::String >, unsigned long, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > >, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned long, seqan::Tag >, seqan::String >, unsigned long, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned long, seqan::Tag >, seqan::String >, unsigned long, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > >, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned long, seqan::Tag >, seqan::String >, unsigned long, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned long, seqan::Tag >, seqan::String >, unsigned long, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘seqan::operator<< >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > >, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned long, seqan::Tag >, seqan::String >, unsigned long, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned long, seqan::Tag >, seqan::String >, unsigned long, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘seqan::Pipe, seqan::Alloc >, seqan::Owner > > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> >, seqan::Multi >, seqan::String > > >::process, seqan::Alloc >, seqan::Owner > > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> > >(seqan::Pipe, seqan::Alloc >, seqan::Owner > > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> >&)bool [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe, seqan::Alloc >, seqan::Owner > > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> >, seqan::Multi >, seqan::String > > >::process, seqan::Alloc >, seqan::Owner > > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> > >(seqan::Pipe, seqan::Alloc >, seqan::Owner > > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> >&)bool [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ [ 6%] Linking CXX executable ../../../bin/fiona_illumina cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/fiona && /usr/bin/cmake -E cmake_link_script CMakeFiles/fiona_illumina.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/fiona_illumina.dir/fiona.cpp.o -o ../../../bin/fiona_illumina -lrt -L/usr/lib64 -lz In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toHtml’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/tool_doc.h:284:34: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551568’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘_toHtml’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘assign.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger3.h:127:17: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘operator++.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘pop’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:423:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:432:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:279:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:289:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘operator<<’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘process.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:345:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘process.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘operator<<’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘process.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘process.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 6%] Built target fiona_illumina make -f core/apps/mason/CMakeFiles/mason.dir/build.make core/apps/mason/CMakeFiles/mason.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/mason /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/mason /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/mason/CMakeFiles/mason.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f core/apps/mason/CMakeFiles/mason.dir/build.make core/apps/mason/CMakeFiles/mason.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 8%] Building CXX object core/apps/mason/CMakeFiles/mason.dir/mason.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/mason && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT core/apps/mason/CMakeFiles/mason.dir/mason.cpp.o -MF CMakeFiles/mason.dir/mason.cpp.o.d -o CMakeFiles/mason.dir/mason.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:44, from /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.cpp:44: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.cpp:39: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/stream.h:86, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/score.h:42, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.cpp:48: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_iterator.h:65, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:86, from /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.cpp:43: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:600:17: required from ‘typename seqan::Iterator::Type>::Type seqan::begin(const T&) [with T = Segment >, InfixSegment>; typename Iterator::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 600 | return begin(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1013:50: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam, const TAlignFunctor&) [with TFile = std::basic_fstream; TSpec = MyFragmentStoreConfig; TConfig = FragmentStoreConfig; TAlignFunctor = Nothing; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1013 | for (TReadNameIterator it = begin(store.readNameStore[readId]); it != end(store.readNameStore[readId]); ++it) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1210:25: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam) [with TFile = std::basic_fstream; TSpec = MyFragmentStoreConfig; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1210 | _writeAlignments(target, store, Sam(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1239:25: required from ‘void seqan::write(TFile&, FragmentStore&, Sam) [with TFile = std::basic_fstream; TSpec = MyFragmentStoreConfig; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1239 | _writeAlignments(target, store, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.h:700:14: required from ‘int simulateReads(TOptions, seqan::CharString, const TReadsTypeTag&) [with TOptions = Options >; TReadsTypeTag = seqan::Tag; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 700 | write(fstrm, fragmentStore, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.cpp:116:29: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 116 | return simulateReads(options, referenceFilename, IlluminaReads()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:147:15: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 147 | : data_container(other_.data_container), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:93, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:43: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:600:17: required from ‘typename seqan::Iterator::Type>::Type seqan::begin(const T&) [with T = Segment >, InfixSegment>; typename Iterator::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 600 | return begin(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1013:50: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam, const TAlignFunctor&) [with TFile = std::basic_fstream; TSpec = MyFragmentStoreConfig; TConfig = FragmentStoreConfig; TAlignFunctor = Nothing; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1013 | for (TReadNameIterator it = begin(store.readNameStore[readId]); it != end(store.readNameStore[readId]); ++it) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1210:25: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam) [with TFile = std::basic_fstream; TSpec = MyFragmentStoreConfig; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1210 | _writeAlignments(target, store, Sam(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1239:25: required from ‘void seqan::write(TFile&, FragmentStore&, Sam) [with TFile = std::basic_fstream; TSpec = MyFragmentStoreConfig; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1239 | _writeAlignments(target, store, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.h:700:14: required from ‘int simulateReads(TOptions, seqan::CharString, const TReadsTypeTag&) [with TOptions = Options >; TReadsTypeTag = seqan::Tag; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 700 | write(fstrm, fragmentStore, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.cpp:116:29: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 116 | return simulateReads(options, referenceFilename, IlluminaReads()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 541 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_endDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:850:23: required from ‘typename seqan::Iterator >::Type seqan::end(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 850 | return _endDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:832:15: required from ‘typename seqan::Iterator::Type>::Type seqan::end(const T&) [with T = Segment >, InfixSegment>; typename Iterator::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 832 | return end(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1013:90: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam, const TAlignFunctor&) [with TFile = std::basic_fstream; TSpec = MyFragmentStoreConfig; TConfig = FragmentStoreConfig; TAlignFunctor = Nothing; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1013 | for (TReadNameIterator it = begin(store.readNameStore[readId]); it != end(store.readNameStore[readId]); ++it) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1210:25: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam) [with TFile = std::basic_fstream; TSpec = MyFragmentStoreConfig; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1210 | _writeAlignments(target, store, Sam(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1239:25: required from ‘void seqan::write(TFile&, FragmentStore&, Sam) [with TFile = std::basic_fstream; TSpec = MyFragmentStoreConfig; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1239 | _writeAlignments(target, store, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.h:700:14: required from ‘int simulateReads(TOptions, seqan::CharString, const TReadsTypeTag&) [with TOptions = Options >; TReadsTypeTag = seqan::Tag; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 700 | write(fstrm, fragmentStore, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.cpp:116:29: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 116 | return simulateReads(options, referenceFilename, IlluminaReads()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:777:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 777 | return TIterator(me, end(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:81: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h: In instantiation of ‘seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1189:28: required from ‘typename seqan::Iterator >::Type seqan::iter(T&, TPos, Tag) [with T = Gaps >, AnchorGaps, Alloc<> > > >; TPos = long int; TTag = Rooted_; typename Iterator >::Type = Iter >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1189 | return begin(me, tag_) + pos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1169:16: required from ‘typename seqan::Iterator::Type>::Type seqan::iter(T&, TPos) [with T = Gaps >, AnchorGaps, Alloc<> > > >; TPos = long int; typename Iterator::Type>::Type = Iter >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1169 | return iter(me, pos, typename DefaultGetIteratorSpec::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_anchor.h:465:20: required from ‘void seqan::insertGaps(Gaps >&, TPosition, TCount) [with TSequence = String >; TGapAnchors = String, Alloc<> >; TPosition = long int; TCount = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 465 | TIter it = iter(gaps, clippedViewPos); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_base.h:628:15: required from ‘void seqan::insertGap(Gaps&, TPosition) [with TSequence = String >; TSpec = AnchorGaps, Alloc<> > >; TPosition = long int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 628 | insertGaps(gaps, clippedViewPos, 1u); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2582:18: required from ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&) [with TSpec = MyFragmentStoreConfig; TConfig = FragmentStoreConfig; TScore = Score >; TShrinkMatches = True]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2582 | insertGap(gaps, insPos - rBegin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.h:1565:36: required from ‘int simulateReadsMain(seqan::FragmentStore&, TRNG&, const TOptions&, const ModelParameters&) [with TRNG = seqan::Rng; TReadsTag = seqan::Tag; TOptions = Options >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1565 | convertMatchesToGlobalAlignment(fragmentStore, Score(), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.h:608:28: required from ‘int simulateReads(TOptions, seqan::CharString, const TReadsTypeTag&) [with TOptions = Options >; TReadsTypeTag = seqan::Tag; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 608 | ret = simulateReadsMain(fragmentStore, rng, options, modelParameters); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.cpp:116:29: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 116 | return simulateReads(options, referenceFilename, IlluminaReads()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:742:58: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 742 | Iter > > result = lhs; | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:744:12: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 744 | return result; | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h: In instantiation of ‘typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_base.h:297:17: required from ‘typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 297 | return value(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:221:19: required from ‘void seqan::getMDString(TMDString&, TGaps1&, TGaps2&) [with TMDString = String >; TGaps1 = Gaps >, AnchorGaps, Alloc<> > > >; TGaps2 = Gaps >, AnchorGaps, Alloc<> > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 221 | op = (*it1 == *it2)? 'M': 'R'; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:475:16: required from ‘void seqan::alignAndGetCigarString(TCigar&, TMDString&, TContig&, TReadSeq&, TAlignedRead&, TErrors&, const Nothing&) [with TCigar = String >; TMDString = String >; TContig = ContigStoreElement >, GapAnchor, void>; TReadSeq = String >; TErrors = int; TAlignedRead = AlignedReadStoreElement, void>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 475 | getMDString(md, contigGaps, readGaps); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1058:35: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam, const TAlignFunctor&) [with TFile = std::basic_fstream; TSpec = MyFragmentStoreConfig; TConfig = FragmentStoreConfig; TAlignFunctor = Nothing; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1058 | alignAndGetCigarString(cigar, md, store.contigStore[(*it).contigId], readSeq, *it, errors, alignFunctor); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1210:25: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam) [with TFile = std::basic_fstream; TSpec = MyFragmentStoreConfig; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1210 | _writeAlignments(target, store, Sam(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1239:25: required from ‘void seqan::write(TFile&, FragmentStore&, Sam) [with TFile = std::basic_fstream; TSpec = MyFragmentStoreConfig; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1239 | _writeAlignments(target, store, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.h:700:14: required from ‘int simulateReads(TOptions, seqan::CharString, const TReadsTypeTag&) [with TOptions = Options >; TReadsTypeTag = seqan::Tag; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 700 | write(fstrm, fragmentStore, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.cpp:116:29: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 116 | return simulateReads(options, referenceFilename, IlluminaReads()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:211:12: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 211 | return TProxy(it); | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_iterator.h:75: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: initializing argument 1 of ‘seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]’ 99 | Proxy(TIterator const _it) | ~~~~~~~~~~~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h: In instantiation of ‘seqan::Proxy >::Proxy(const seqan::Proxy >&) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_base.h:297:17: required from ‘typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 297 | return value(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:221:19: required from ‘void seqan::getMDString(TMDString&, TGaps1&, TGaps2&) [with TMDString = String >; TGaps1 = Gaps >, AnchorGaps, Alloc<> > > >; TGaps2 = Gaps >, AnchorGaps, Alloc<> > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 221 | op = (*it1 == *it2)? 'M': 'R'; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:475:16: required from ‘void seqan::alignAndGetCigarString(TCigar&, TMDString&, TContig&, TReadSeq&, TAlignedRead&, TErrors&, const Nothing&) [with TCigar = String >; TMDString = String >; TContig = ContigStoreElement >, GapAnchor, void>; TReadSeq = String >; TErrors = int; TAlignedRead = AlignedReadStoreElement, void>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 475 | getMDString(md, contigGaps, readGaps); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1058:35: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam, const TAlignFunctor&) [with TFile = std::basic_fstream; TSpec = MyFragmentStoreConfig; TConfig = FragmentStoreConfig; TAlignFunctor = Nothing; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 1058 | alignAndGetCigarString(cigar, md, store.contigStore[(*it).contigId], readSeq, *it, errors, alignFunctor); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1210:25: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam) [with TFile = std::basic_fstream; TSpec = MyFragmentStoreConfig; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 1210 | _writeAlignments(target, store, Sam(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1239:25: required from ‘void seqan::write(TFile&, FragmentStore&, Sam) [with TFile = std::basic_fstream; TSpec = MyFragmentStoreConfig; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 1239 | _writeAlignments(target, store, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.h:700:14: required from ‘int simulateReads(TOptions, seqan::CharString, const TReadsTypeTag&) [with TOptions = Options >; TReadsTypeTag = seqan::Tag; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 700 | write(fstrm, fragmentStore, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.cpp:116:29: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 116 | return simulateReads(options, referenceFilename, IlluminaReads()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:106:15: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 106 | : data_iterator(_other.data_iterator) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2091:19: required from ‘typename seqan::Size::Type seqan::reserve(T&, const TSize&) [with T = String, Alloc<> >; TSize = long unsigned int; typename Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 2091 | return reserve(me, new_capacity, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.h:478:12: required from ‘int writeRandomSequence(TRNG&, size_t, const seqan::CharString&, const TOptions&) [with TRNG = seqan::Rng; TOptions = Options >; size_t = long unsigned int; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 478 | reserve(randomSequence, length); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.h:568:38: required from ‘int simulateReads(TOptions, seqan::CharString, const TReadsTypeTag&) [with TOptions = Options >; TReadsTypeTag = seqan::Tag; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 568 | int ret = writeRandomSequence(rng, options.randomSourceLength, referenceFilename, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.cpp:116:29: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 116 | return simulateReads(options, referenceFilename, IlluminaReads()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:131:16: required from ‘seqan::String >::String(const seqan::String >&) [with TValue = seqan::SimpleType; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 131 | reserve(*this, std::min(capacity(source), computeGenerousCapacity(source, length(source))), Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.h:1385:31: required from ‘int simulateReadsMain(seqan::FragmentStore&, TRNG&, const TOptions&, const ModelParameters&) [with TRNG = seqan::Rng; TReadsTag = seqan::Tag; TOptions = Options >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1385 | String read = infix(haplotypeContigsCopy[inst.contigId], inst.beginPos, inst.endPos); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.h:608:28: required from ‘int simulateReads(TOptions, seqan::CharString, const TReadsTypeTag&) [with TOptions = Options >; TReadsTypeTag = seqan::Tag; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 608 | ret = simulateReadsMain(fragmentStore, rng, options, modelParameters); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.cpp:116:29: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 116 | return simulateReads(options, referenceFilename, IlluminaReads()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:92: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:139:40: required from ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 139 | : data_container(_toPointer(container_)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: required from ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 541 | return TIterator(me, begin(me, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:600:17: required from ‘typename seqan::Iterator::Type>::Type seqan::begin(const T&) [with T = Segment >, InfixSegment>; typename Iterator::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 600 | return begin(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1013:50: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam, const TAlignFunctor&) [with TFile = std::basic_fstream; TSpec = MyFragmentStoreConfig; TConfig = FragmentStoreConfig; TAlignFunctor = Nothing; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1013 | for (TReadNameIterator it = begin(store.readNameStore[readId]); it != end(store.readNameStore[readId]); ++it) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1210:25: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam) [with TFile = std::basic_fstream; TSpec = MyFragmentStoreConfig; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1210 | _writeAlignments(target, store, Sam(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1239:25: required from ‘void seqan::write(TFile&, FragmentStore&, Sam) [with TFile = std::basic_fstream; TSpec = MyFragmentStoreConfig; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1239 | _writeAlignments(target, store, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.h:700:14: required from ‘int simulateReads(TOptions, seqan::CharString, const TReadsTypeTag&) [with TOptions = Options >; TReadsTypeTag = seqan::Tag; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 700 | write(fstrm, fragmentStore, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.cpp:116:29: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 116 | return simulateReads(options, referenceFilename, IlluminaReads()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h: In instantiation of ‘seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:211:12: required from ‘typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 211 | return TProxy(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_base.h:297:17: required from ‘typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 297 | return value(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:221:19: required from ‘void seqan::getMDString(TMDString&, TGaps1&, TGaps2&) [with TMDString = String >; TGaps1 = Gaps >, AnchorGaps, Alloc<> > > >; TGaps2 = Gaps >, AnchorGaps, Alloc<> > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 221 | op = (*it1 == *it2)? 'M': 'R'; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:475:16: required from ‘void seqan::alignAndGetCigarString(TCigar&, TMDString&, TContig&, TReadSeq&, TAlignedRead&, TErrors&, const Nothing&) [with TCigar = String >; TMDString = String >; TContig = ContigStoreElement >, GapAnchor, void>; TReadSeq = String >; TErrors = int; TAlignedRead = AlignedReadStoreElement, void>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 475 | getMDString(md, contigGaps, readGaps); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1058:35: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam, const TAlignFunctor&) [with TFile = std::basic_fstream; TSpec = MyFragmentStoreConfig; TConfig = FragmentStoreConfig; TAlignFunctor = Nothing; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1058 | alignAndGetCigarString(cigar, md, store.contigStore[(*it).contigId], readSeq, *it, errors, alignFunctor); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1210:25: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam) [with TFile = std::basic_fstream; TSpec = MyFragmentStoreConfig; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1210 | _writeAlignments(target, store, Sam(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1239:25: required from ‘void seqan::write(TFile&, FragmentStore&, Sam) [with TFile = std::basic_fstream; TSpec = MyFragmentStoreConfig; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1239 | _writeAlignments(target, store, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.h:700:14: required from ‘int simulateReads(TOptions, seqan::CharString, const TReadsTypeTag&) [with TOptions = Options >; TReadsTypeTag = seqan::Tag; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 700 | write(fstrm, fragmentStore, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.cpp:116:29: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 116 | return simulateReads(options, referenceFilename, IlluminaReads()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:100:15: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 100 | : data_iterator(_it) | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1444:21: required from ‘void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1444 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1465:31: required from ‘void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1465 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:849:31: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String, seqan::Alloc<> >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 849 | arrayConstructMove(old_array, old_array + start, seq_array); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: required from ‘typename seqan::Size >::Type seqan::_clearSpace(String&, TSize, TPosition, TPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long unsigned int; TPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1014 | return ClearSpaceStringBase_ >::_clearSpace_(me, size, pos_begin, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1367:67: required from ‘static void seqan::AppendString_::append_(TTarget&, TSource&) [with TTarget = seqan::String, seqan::Alloc<> >; TSource = const seqan::String >; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1367 | typename Size::Type part_length = _clearSpace(target, length(source), target_length, target_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42: required from ‘void seqan::append(String&, const TSource&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1421 | AppendString_ >::append_(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1626:11: required from ‘void seqan::append(TTarget&, const TSource&) [with TTarget = String, Alloc<> >; TSource = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1626 | append(target, source, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence_journaled/sequence_journaled.h:745:11: required from ‘void seqan::insert(String >&, TPos, const TString&) [with TValue = SimpleType; THostSpec = Alloc<>; TJournalSpec = SortedArray; TBufferSpec = Alloc<>; TString = String >; TPos = long int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 745 | append(journaledString._insertionBuffer, seq); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.h:944:19: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 944 | insert(haplotype[contigId], pos + delta, alt[allele]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1589:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1589 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2091:19: required from ‘typename seqan::Size::Type seqan::reserve(T&, const TSize&) [with T = String, Alloc<> >; TSize = unsigned int; typename Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2091 | return reserve(me, new_capacity, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.h:1008:12: required from ‘void buildHaplotype(seqan::StringSet, seqan::Journaled > > >&, seqan::FragmentStore&, seqan::String >&, TRNG&, const Options&) [with TRNG = seqan::Rng]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1008 | reserve(buffer, options.haplotypeIndelRangeMax); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.h:1322:27: required from ‘int simulateReadsMain(seqan::FragmentStore&, TRNG&, const TOptions&, const ModelParameters&) [with TRNG = seqan::Rng; TReadsTag = seqan::Tag; TOptions = Options >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1322 | buildHaplotype(haplotypeContigs, fragmentStore, snpSet, rng, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.h:608:28: required from ‘int simulateReads(TOptions, seqan::CharString, const TReadsTypeTag&) [with TOptions = Options >; TReadsTypeTag = seqan::Tag; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 608 | ret = simulateReadsMain(fragmentStore, rng, options, modelParameters); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.cpp:116:29: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 116 | return simulateReads(options, referenceFilename, IlluminaReads()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveBackwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1641:30: required from ‘void seqan::arrayMoveBackward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1641 | _arrayMoveBackwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1213:26: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = SimpleType*; TSource1 = SimpleType*; TSource2 = SimpleType*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1213 | arrayMoveBackward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1660:14: required from ‘void seqan::_arrayClearSpacePointer(TValue*, size_t, size_t, size_t, const True&) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1660 | arrayMove(array_begin + keep_from, array_begin + array_length, array_begin + move_to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1681:28: required from ‘void seqan::arrayClearSpace(TValue*, size_t, size_t, size_t) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1681 | _arrayClearSpacePointer(array_begin, array_length, keep_from, move_to, typename IsSimple::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:856:28: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String, seqan::Alloc<> >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 856 | arrayClearSpace(seq_array + start, old_length - start, removed_size, size); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: required from ‘typename seqan::Size >::Type seqan::_clearSpace(String&, TSize, TPosition, TPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long unsigned int; TPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1014 | return ClearSpaceStringBase_ >::_clearSpace_(me, size, pos_begin, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1367:67: required from ‘static void seqan::AppendString_::append_(TTarget&, TSource&) [with TTarget = seqan::String, seqan::Alloc<> >; TSource = const seqan::String >; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1367 | typename Size::Type part_length = _clearSpace(target, length(source), target_length, target_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42: required from ‘void seqan::append(String&, const TSource&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1421 | AppendString_ >::append_(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1626:11: required from ‘void seqan::append(TTarget&, const TSource&) [with TTarget = String, Alloc<> >; TSource = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1626 | append(target, source, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence_journaled/sequence_journaled.h:745:11: required from ‘void seqan::insert(String >&, TPos, const TString&) [with TValue = SimpleType; THostSpec = Alloc<>; TJournalSpec = SortedArray; TBufferSpec = Alloc<>; TString = String >; TPos = long int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 745 | append(journaledString._insertionBuffer, seq); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.h:944:19: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 944 | insert(haplotype[contigId], pos + delta, alt[allele]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1621:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1621 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/stl_tempbuf.h:59, from /usr/include/c++/14/bits/stl_algo.h:69, from /usr/include/c++/14/algorithm:61, from /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.cpp:37: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ In function ‘seqan::allocate >, seqan::Alloc >, ReadSimulationInstruction >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Alloc >&, ReadSimulationInstruction >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, void, unsigned long>(seqan::String >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Alloc > >(seqan::String >, seqan::Alloc >&, seqan::Size >, seqan::Alloc > >::Type)seqan::Size >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize >, seqan::Alloc >, unsigned long>(seqan::String >, seqan::Alloc >&, unsigned long)seqan::Size >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack >, seqan::Alloc > >(seqan::String >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘buildReadSimulationInstruction, seqan::Rng, seqan::Alloc >(seqan::String >, seqan::Alloc >&, seqan::Rng&, unsigned int const&, seqan::StringSet, seqan::Alloc >, seqan::Owner > > const&, seqan::String > const&, unsigned long const&, bool, ModelParameters > const&, Options > const&)int [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.h:1193:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551456’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘buildReadSimulationInstruction, seqan::Rng, seqan::Alloc >(seqan::String >, seqan::Alloc >&, seqan::Rng&, unsigned int const&, seqan::StringSet, seqan::Alloc >, seqan::Owner > > const&, seqan::String > const&, unsigned long const&, bool, ModelParameters > const&, Options > const&)int [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Alloc >, ReadSimulationInstruction >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Alloc >&, ReadSimulationInstruction >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, void, unsigned long>(seqan::String >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Alloc > >(seqan::String >, seqan::Alloc >&, seqan::Size >, seqan::Alloc > >::Type)seqan::Size >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize >, seqan::Alloc >, unsigned long>(seqan::String >, seqan::Alloc >&, unsigned long)seqan::Size >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack >, seqan::Alloc > >(seqan::String >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘buildReadSimulationInstruction, seqan::Rng, seqan::Alloc >(seqan::String >, seqan::Alloc >&, seqan::Rng&, unsigned int const&, seqan::StringSet, seqan::Alloc >, seqan::Owner > > const&, seqan::String > const&, unsigned long const&, bool, ModelParameters > const&, Options > const&)int [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.h:1193:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551456’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘buildReadSimulationInstruction, seqan::Rng, seqan::Alloc >(seqan::String >, seqan::Alloc >&, seqan::Rng&, unsigned int const&, seqan::StringSet, seqan::Alloc >, seqan::Owner > > const&, seqan::String > const&, unsigned long const&, bool, ModelParameters > const&, Options > const&)int [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Alloc >, ReadSimulationInstruction >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Alloc >&, ReadSimulationInstruction >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, void, unsigned long>(seqan::String >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Alloc > >(seqan::String >, seqan::Alloc >&, seqan::Size >, seqan::Alloc > >::Type)seqan::Size >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize >, seqan::Alloc >, unsigned long>(seqan::String >, seqan::Alloc >&, unsigned long)seqan::Size >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack >, seqan::Alloc > >(seqan::String >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘buildReadSimulationInstruction, seqan::Rng, seqan::Alloc >(seqan::String >, seqan::Alloc >&, seqan::Rng&, unsigned int const&, seqan::StringSet, seqan::Alloc >, seqan::Owner > > const&, seqan::String > const&, unsigned long const&, bool, ModelParameters > const&, Options > const&)int [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.h:1193:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551408’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘buildReadSimulationInstruction, seqan::Rng, seqan::Alloc >(seqan::String >, seqan::Alloc >&, seqan::Rng&, unsigned int const&, seqan::StringSet, seqan::Alloc >, seqan::Owner > > const&, seqan::String > const&, unsigned long const&, bool, ModelParameters > const&, Options > const&)int [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ [ 8%] Linking CXX executable ../../../bin/mason cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/mason && /usr/bin/cmake -E cmake_link_script CMakeFiles/mason.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/mason.dir/mason.cpp.o -o ../../../bin/mason -lrt In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘buildReadSimulationInstruction.constprop.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.h:1193:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551456’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘buildReadSimulationInstruction.constprop.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘buildReadSimulationInstruction.constprop.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/apps/mason/mason.h:1193:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551456’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘buildReadSimulationInstruction.constprop.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 8%] Built target mason make -f core/apps/micro_razers/CMakeFiles/micro_razers.dir/build.make core/apps/micro_razers/CMakeFiles/micro_razers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/micro_razers /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/micro_razers/CMakeFiles/micro_razers.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f core/apps/micro_razers/CMakeFiles/micro_razers.dir/build.make core/apps/micro_razers/CMakeFiles/micro_razers.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 8%] Building CXX object core/apps/micro_razers/CMakeFiles/micro_razers.dir/micro_razers.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/micro_razers && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT core/apps/micro_razers/CMakeFiles/micro_razers.dir/micro_razers.cpp.o -MF CMakeFiles/micro_razers.dir/micro_razers.cpp.o.d -o CMakeFiles/micro_razers.dir/micro_razers.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:44, from /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:28, from /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:37: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:25: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/stream.h:86, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/score.h:42, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:62, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:40, from /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:29: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:45:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:54:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:63:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 63 | struct filterI3 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:401:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 401 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:507:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 507 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:78: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:42:48: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public ::std::binary_function < PageBucket, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:57:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:257:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 257 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:372:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 372 | struct insertBucket : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_set.h:373:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:404:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 404 | public::std::binary_function // functor for operator> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:744:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 744 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:760:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 760 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:80: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:854:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 854 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:902:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 902 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:970:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 970 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1039:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1039 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1073:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1073 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1121:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1121 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2093:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2093 | struct _qgramComp : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2112:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2112 | public ::std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:46:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 46 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:85:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 85 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:96: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:98:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 98 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:112:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 112 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:127:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:144:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:154:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:99: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:110:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 110 | public ::std::binary_function < SkewDCStream, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:143:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 143 | public ::std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:100: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:99:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 99 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:118:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:132:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 132 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:154:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:175:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 175 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:185:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 185 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:103: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:57:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:97:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 97 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:141:29: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:109: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:59:42: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:164:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, KasaiOriginal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:312:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 312 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:313:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 313 | LCP[isa - 1] = h; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:379:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 379 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:380:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 380 | LCP[i] = h | mark; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const StringSet&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:483:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 483 | for(TSize hMax = _min(getValueI2((TPair)dec), n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:484:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 484 | LCP[i] = h | mark; | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:113: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h:144:50: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:585:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 585 | public ::std::binary_function< Pair, Pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:128: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In function ‘void seqan::_storeWotdChildren(Index > >&, TSize, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:504:27: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 504 | } else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:506:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 506 | for (TDirSize d = index.sentinelBound - index.sentinelOcc; d != index.sentinelBound; ++d) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:136: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h:149:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 149 | struct RepeatLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:157: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h: In function ‘typename seqan::Iterator >::Type seqan::_upperBoundLcpe(TText&, TSA&, SearchTreeIterator, TQuery&, TDiff_, TDiff_)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1498:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1498 | for(; i && ordEqual(*t, convert(*q)); --i, ++t, ++q) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1501 | if (q == qEnd || t == tEnd || !ordGreater(*t, convert(*q))) { | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:662:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 662 | struct LessRNoGPos : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:691:49: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 691 | struct LessRNoEdistHLen : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:747:47: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 747 | struct LessRNoGEndPos : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:779:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 779 | struct LessErrors : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/outputFormat.h:30, from /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:38: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/outputFormat.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/outputFormat.h:126:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 126 | struct LessGPosRNo : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, TStringSet&, TShape&, TDir&, Nothing, TWithConstraints, TValue, MicroRNA) [with TSA = String >, Alloc<> >; TStringSet = StringSet >, Owner > >; TShape = Shape, UngappedShape<0> >; TDir = String >; TValue = unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1911:25: required from ‘void seqan::createQGramIndex(TIndex&, TValue, MicroRNA) [with TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TValue = unsigned int]’ /usr/include/c++/14/bits/stl_function.h:131:12: note: 1911 | _qgramFillSuffixArray(sa, text, shape, dir, nothing, True(), prefixLen, MicroRNA()); /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2007:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /usr/include/c++/14/bits/stl_function.h:131:12: note: 2007 | createQGramIndex(swiftIndex,options.rnaSeedLength,MicroRNA()); /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /usr/include/c++/14/bits/stl_function.h:131:12: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2292:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /usr/include/c++/14/bits/stl_function.h:131:12: note: 2292 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:182:25: required from ‘int mapMicroRNAReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /usr/include/c++/14/bits/stl_function.h:131:12: note: 182 | int error = mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, stats, options); /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:537:34: required from here /usr/include/c++/14/bits/stl_function.h:131:12: note: 537 | int result = mapMicroRNAReads(genomeFileNames, readFileNames, errorPrbFileName, options); /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1845:71: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1845 | if (dir[h] != (TSize)-1) sa[dir[h]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:56, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:71, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:51, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:43: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1847:68: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1847 | sa[dir[hash(shape, itText) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1855:79: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1855 | if (dir[h] != (TSize)-1) sa[dir[h]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1857:80: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1857 | sa[dir[hashNext(shape, itText) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, TStringSet&, TShape&, TDir&, Nothing, TWithConstraints, TValue, MicroRNA) [with TSA = String >, Alloc<> >; TStringSet = StringSet >, Owner > >; TShape = Shape, UngappedShape<0> >; TDir = String >; TValue = unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1922:25: required from ‘void seqan::createQGramIndex(TIndex&, TValue, MicroRNA) [with TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TValue = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1922 | _qgramFillSuffixArray(sa, text, shape, dir, nothing, False(),prefixLen, MicroRNA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2007:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2007 | createQGramIndex(swiftIndex,options.rnaSeedLength,MicroRNA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2292:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2292 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:182:25: required from ‘int mapMicroRNAReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 182 | int error = mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:537:34: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 537 | int result = mapMicroRNAReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1845:71: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1845 | if (dir[h] != (TSize)-1) sa[dir[h]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1847:68: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1847 | sa[dir[hash(shape, itText) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1855:79: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1855 | if (dir[h] != (TSize)-1) sa[dir[h]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1857:80: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1857 | sa[dir[hashNext(shape, itText) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h: In instantiation of ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, const TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobalHamming) [with TMatch = ReadMatch; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, InfixSegment>, Myers >, Alloc<> >; TSpec = RazerSSpec<>; SwiftSemiGlobalHamming = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1736:15: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1736 | matchVerify(m, infix(swiftFinder), rseqNo, readSet, forwardPatterns, options, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2292:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2292 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:182:25: required from ‘int mapMicroRNAReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 182 | int error = mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:537:34: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 537 | int result = mapMicroRNAReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1378:35: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1378 | return matchVerify(m,inf,rseqNo,readSet,options,MicroRNA()); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:93: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1276:40: note: initializing argument 2 of ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, const RazerSOptions&, MicroRNA) [with TMatch = ReadMatch; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; TSpec = RazerSSpec<>]’ 1276 | Segment inf, // potential match genome region | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, TStringSet&, TShape&, TDir&, Nothing, TWithConstraints, TValue, MicroRNA) [with TSA = String >, Alloc<> >; TStringSet = StringSet >, Owner > >; TShape = Shape, OneGappedShape>; TDir = String >; TValue = unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1911:25: required from ‘void seqan::createQGramIndex(TIndex&, TValue, MicroRNA) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TValue = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1276:40: note: 1911 | _qgramFillSuffixArray(sa, text, shape, dir, nothing, True(), prefixLen, MicroRNA()); /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1276:40: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2007:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1276:40: note: 2007 | createQGramIndex(swiftIndex,options.rnaSeedLength,MicroRNA()); /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1276:40: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1276:40: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1276:40: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2295:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1276:40: note: 2295 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1276:40: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:182:25: required from ‘int mapMicroRNAReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1276:40: note: 182 | int error = mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1276:40: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:537:34: required from here /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1276:40: note: 537 | int result = mapMicroRNAReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1276:40: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1845:71: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1845 | if (dir[h] != (TSize)-1) sa[dir[h]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1847:68: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1847 | sa[dir[hash(shape, itText) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1855:79: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1855 | if (dir[h] != (TSize)-1) sa[dir[h]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1857:80: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1857 | sa[dir[hashNext(shape, itText) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, TStringSet&, TShape&, TDir&, Nothing, TWithConstraints, TValue, MicroRNA) [with TSA = String >, Alloc<> >; TStringSet = StringSet >, Owner > >; TShape = Shape, OneGappedShape>; TDir = String >; TValue = unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1922:25: required from ‘void seqan::createQGramIndex(TIndex&, TValue, MicroRNA) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TValue = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1922 | _qgramFillSuffixArray(sa, text, shape, dir, nothing, False(),prefixLen, MicroRNA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2007:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2007 | createQGramIndex(swiftIndex,options.rnaSeedLength,MicroRNA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2295:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2295 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:182:25: required from ‘int mapMicroRNAReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 182 | int error = mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:537:34: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 537 | int result = mapMicroRNAReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1845:71: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1845 | if (dir[h] != (TSize)-1) sa[dir[h]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1847:68: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1847 | sa[dir[hash(shape, itText) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1855:79: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1855 | if (dir[h] != (TSize)-1) sa[dir[h]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1857:80: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1857 | sa[dir[hashNext(shape, itText) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, TStringSet&, TShape&, TDir&, Nothing, TWithConstraints, TValue, MicroRNA) [with TSA = String >, Alloc<> >; TStringSet = StringSet >, Owner > >; TShape = Shape, GappedShape > >; TDir = String >; TValue = unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1911:25: required from ‘void seqan::createQGramIndex(TIndex&, TValue, MicroRNA) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TValue = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1911 | _qgramFillSuffixArray(sa, text, shape, dir, nothing, True(), prefixLen, MicroRNA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2007:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2007 | createQGramIndex(swiftIndex,options.rnaSeedLength,MicroRNA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2298:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2298 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:182:25: required from ‘int mapMicroRNAReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 182 | int error = mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:537:34: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 537 | int result = mapMicroRNAReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1845:71: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1845 | if (dir[h] != (TSize)-1) sa[dir[h]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1847:68: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1847 | sa[dir[hash(shape, itText) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1855:79: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1855 | if (dir[h] != (TSize)-1) sa[dir[h]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1857:80: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1857 | sa[dir[hashNext(shape, itText) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, TStringSet&, TShape&, TDir&, Nothing, TWithConstraints, TValue, MicroRNA) [with TSA = String >, Alloc<> >; TStringSet = StringSet >, Owner > >; TShape = Shape, GappedShape > >; TDir = String >; TValue = unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1922:25: required from ‘void seqan::createQGramIndex(TIndex&, TValue, MicroRNA) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TValue = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1922 | _qgramFillSuffixArray(sa, text, shape, dir, nothing, False(),prefixLen, MicroRNA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2007:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2007 | createQGramIndex(swiftIndex,options.rnaSeedLength,MicroRNA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2298:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2298 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:182:25: required from ‘int mapMicroRNAReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 182 | int error = mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:537:34: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 537 | int result = mapMicroRNAReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1845:71: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1845 | if (dir[h] != (TSize)-1) sa[dir[h]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1847:68: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1847 | sa[dir[hash(shape, itText) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1855:79: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1855 | if (dir[h] != (TSize)-1) sa[dir[h]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1857:80: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1857 | sa[dir[hashNext(shape, itText) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h: In instantiation of ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal) [with TMatch = ReadMatch; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, InfixSegment>, Myers >, Alloc<> >; TSpec = RazerSSpec<>; SwiftSemiGlobal = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1736:15: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1736 | matchVerify(m, infix(swiftFinder), rseqNo, readSet, forwardPatterns, options, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2303:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2303 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:182:25: required from ‘int mapMicroRNAReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 182 | int error = mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:537:34: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 537 | int result = mapMicroRNAReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1490:33: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1490 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:570:9: required from ‘bool seqan::loadReads(TReadSet&, TNameSet&, const char*, TRazerSOptions&) [with TReadSet = StringSet >, Owner > >; TNameSet = StringSet > >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 570 | reserve(reads.concat, length(reads.concat), Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:158:19: required from ‘int mapMicroRNAReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 158 | if (!loadReads(readSet, readNames, toCString(readFileNames[0]), options)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:537:34: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 537 | int result = mapMicroRNAReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:162: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = String, Alloc<> >; TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1876 | _patternInit(pattern, errorRate, minLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1716:13: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1716 | while (find(swiftFinder, swiftPattern, 0.2)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2295:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2295 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:182:25: required from ‘int mapMicroRNAReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 182 | int error = mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:537:34: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 537 | int result = mapMicroRNAReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:77: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = String, Alloc<> >; TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1876 | _patternInit(pattern, errorRate, minLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1716:13: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1716 | while (find(swiftFinder, swiftPattern, 0.2)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2298:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2298 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:182:25: required from ‘int mapMicroRNAReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 182 | int error = mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:537:34: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 537 | int result = mapMicroRNAReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:76: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_iterator.h:65, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:86: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:440:5: required from ‘seqan::Finder::Finder(THaystack&) [with THaystack = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 440 | : data_iterator(begin(haystack, Rooted())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1459:15: required from ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal) [with TMatch = ReadMatch; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, InfixSegment>, Myers >, Alloc<> >; TSpec = RazerSSpec<>; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1459 | TMyersFinder myersFinder(inf); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1736:15: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1736 | matchVerify(m, infix(swiftFinder), rseqNo, readSet, forwardPatterns, options, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2303:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2303 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:182:25: required from ‘int mapMicroRNAReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 182 | int error = mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:537:34: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 537 | int result = mapMicroRNAReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:147:15: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 147 | : data_container(other_.data_container), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:92: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:77: required from ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1490:19: required from ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal) [with TMatch = ReadMatch; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, InfixSegment>, Myers >, Alloc<> >; TSpec = RazerSSpec<>; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1490 | TGenomeInfixRev infRev(inf); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1736:15: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1736 | matchVerify(m, infix(swiftFinder), rseqNo, readSet, forwardPatterns, options, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2303:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2303 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:182:25: required from ‘int mapMicroRNAReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 182 | int error = mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:537:34: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 537 | int result = mapMicroRNAReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:77: required from ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1491:13: required from ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal) [with TMatch = ReadMatch; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, InfixSegment>, Myers >, Alloc<> >; TSpec = RazerSSpec<>; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1491 | TReadRev readRev(readSet[rseqNo]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1736:15: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1736 | matchVerify(m, infix(swiftFinder), rseqNo, readSet, forwardPatterns, options, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2303:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2303 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:182:25: required from ‘int mapMicroRNAReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 182 | int error = mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:537:34: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 537 | int result = mapMicroRNAReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = String, Alloc<> >; TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1876 | _patternInit(pattern, errorRate, minLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1716:13: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1716 | while (find(swiftFinder, swiftPattern, 0.2)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2306:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2306 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:182:25: required from ‘int mapMicroRNAReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 182 | int error = mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:537:34: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 537 | int result = mapMicroRNAReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = String, Alloc<> >; TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1876 | _patternInit(pattern, errorRate, minLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1716:13: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1716 | while (find(swiftFinder, swiftPattern, 0.2)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2309:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2309 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:182:25: required from ‘int mapMicroRNAReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 182 | int error = mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:537:34: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 537 | int result = mapMicroRNAReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:616:25: required from ‘typename seqan::Iterator >::Type seqan::begin(T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 616 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:440:24: required from ‘seqan::Finder::Finder(THaystack&) [with THaystack = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 440 | : data_iterator(begin(haystack, Rooted())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1459:15: required from ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal) [with TMatch = ReadMatch; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, InfixSegment>, Myers >, Alloc<> >; TSpec = RazerSSpec<>; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1459 | TMyersFinder myersFinder(inf); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1736:15: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1736 | matchVerify(m, infix(swiftFinder), rseqNo, readSet, forwardPatterns, options, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2303:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2303 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:182:25: required from ‘int mapMicroRNAReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 182 | int error = mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:537:34: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 537 | int result = mapMicroRNAReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:532:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 532 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:69: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSource = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TValue2 = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; typename Reference > >::Type = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Swift > >; typename Host >::Type = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1685:31: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1685 | TReadSet &readSet = host(host(swiftPattern)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2292:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2292 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:182:25: required from ‘int mapMicroRNAReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 182 | int error = mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:537:34: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 537 | int result = mapMicroRNAReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: because ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText_ = seqan::StringSet >, seqan::Owner > >; TShapeSpec = seqan::Shape, seqan::UngappedShape<0> >; TSpec = seqan::Tag]’ 368 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, UngappedShape<0> >; TDir = String >; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1593:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 1593 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, UngappedShape<0> >; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, UngappedShape<0> >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, UngappedShape<0> >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1712:17: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 1712 | indexRequire(host(swiftPattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2292:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 2292 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:182:25: required from ‘int mapMicroRNAReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 182 | int error = mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:537:34: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 537 | int result = mapMicroRNAReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, UngappedShape<0> >; TDir = String >; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1604:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1604 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, UngappedShape<0> >; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, UngappedShape<0> >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, UngappedShape<0> >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1712:17: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1712 | indexRequire(host(swiftPattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2292:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2292 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:182:25: required from ‘int mapMicroRNAReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 182 | int error = mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:537:34: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 537 | int result = mapMicroRNAReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSource = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TValue2 = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; typename Reference > >::Type = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Swift > >; typename Host >::Type = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1685:31: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1685 | TReadSet &readSet = host(host(swiftPattern)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2295:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2295 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:182:25: required from ‘int mapMicroRNAReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 182 | int error = mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:537:34: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 537 | int result = mapMicroRNAReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: because ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText_ = seqan::StringSet >, seqan::Owner > >; TShapeSpec = seqan::Shape, seqan::OneGappedShape>; TSpec = seqan::Tag]’ 368 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:333:15: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 333 | class Index > { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, OneGappedShape>; TDir = String >; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1593:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1593 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, OneGappedShape>; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, OneGappedShape>, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, OneGappedShape>, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1712:17: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1712 | indexRequire(host(swiftPattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2295:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2295 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:182:25: required from ‘int mapMicroRNAReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 182 | int error = mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:537:34: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 537 | int result = mapMicroRNAReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, OneGappedShape>; TDir = String >; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1604:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1604 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, OneGappedShape>; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, OneGappedShape>, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, OneGappedShape>, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1712:17: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1712 | indexRequire(host(swiftPattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2295:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2295 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:182:25: required from ‘int mapMicroRNAReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 182 | int error = mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:537:34: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 537 | int result = mapMicroRNAReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSource = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TValue2 = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; typename Reference > >::Type = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSpec = Swift > >; typename Host >::Type = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1685:31: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1685 | TReadSet &readSet = host(host(swiftPattern)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2298:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2298 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:182:25: required from ‘int mapMicroRNAReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 182 | int error = mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:537:34: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 537 | int result = mapMicroRNAReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: because ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText_ = seqan::StringSet >, seqan::Owner > >; TShapeSpec = seqan::Shape, seqan::GappedShape > >; TSpec = seqan::Tag]’ 368 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:333:15: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 333 | class Index > { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, GappedShape > >; TDir = String >; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1593:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1593 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, GappedShape > >; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, GappedShape > >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, GappedShape > >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1712:17: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1712 | indexRequire(host(swiftPattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2298:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2298 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:182:25: required from ‘int mapMicroRNAReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 182 | int error = mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:537:34: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 537 | int result = mapMicroRNAReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, GappedShape > >; TDir = String >; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1604:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1604 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, GappedShape > >; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, GappedShape > >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, GappedShape > >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1712:17: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1712 | indexRequire(host(swiftPattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2298:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2298 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:182:25: required from ‘int mapMicroRNAReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 182 | int error = mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:537:34: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 537 | int result = mapMicroRNAReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:52: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::container(Finder&) [with THaystack = Segment, Alloc<> >, InfixSegment>; TSpec = void; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1724:42: required from ‘bool seqan::find(TFinder&, const Pattern >&, PatternState_ >&) [with TFinder = Finder, Alloc<> >, InfixSegment>, void>; TNeedle = Segment >, InfixSegment>; TSpec = FindInfix; THasState = True; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1724 | TSize haystack_length = length(container(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1756:13: required from ‘bool seqan::find(TFinder&, const Pattern >&, PatternState_ >&, int) [with TFinder = Finder, Alloc<> >, InfixSegment>, void>; TNeedle = Segment >, InfixSegment>; TSpec = FindInfix; THasState = True; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1756 | return find(finder, pattern, state); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1774:13: required from ‘bool seqan::find(TFinder&, Pattern >&, int) [with TFinder = Finder, Alloc<> >, InfixSegment>, void>; TNeedle = Segment >, InfixSegment>; TSpec = FindInfix; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1774 | return find(finder, pattern, pattern, minScore); //static cast /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1474:13: required from ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal) [with TMatch = ReadMatch; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, InfixSegment>, Myers >, Alloc<> >; TSpec = RazerSSpec<>; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1474 | while (find(myersFinder, myersPattern, minScore)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1736:15: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1736 | matchVerify(m, infix(swiftFinder), rseqNo, readSet, forwardPatterns, options, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2303:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2303 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:182:25: required from ‘int mapMicroRNAReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 182 | int error = mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:537:34: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 537 | int result = mapMicroRNAReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:793:42: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 793 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_endDefault(T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:841:23: required from ‘typename seqan::Iterator >::Type seqan::end(T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 841 | return _endDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_reverse.h:463:24: required from ‘typename seqan::Iterator >, const seqan::Tag >::Type seqan::begin(ModifiedString >&, Tag) [with THost = Segment, Alloc<> >, InfixSegment>; TTagSpec = Rooted_; typename Iterator >, const Tag >::Type = ModifiedIterator, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 463 | TIterator temp_(end(host(me), Rooted())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:440:24: required from ‘seqan::Finder::Finder(THaystack&) [with THaystack = seqan::ModifiedString, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Tag >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 440 | : data_iterator(begin(haystack, Rooted())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1492:19: required from ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal) [with TMatch = ReadMatch; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, InfixSegment>, Myers >, Alloc<> >; TSpec = RazerSSpec<>; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1492 | TMyersFinderRev myersFinderRev(infRev); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1736:15: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1736 | matchVerify(m, infix(swiftFinder), rseqNo, readSet, forwardPatterns, options, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2303:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2303 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:182:25: required from ‘int mapMicroRNAReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 182 | int error = mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:537:34: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 537 | int result = mapMicroRNAReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:768:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 768 | return TIterator(me, end(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = unsigned int; TExpand = TagGenerous_; typename Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45: required from ‘static typename seqan::Size::Type seqan::_Resize_String::resize_(T&, typename seqan::Size::Type) [with T = seqan::String, seqan::Alloc<> >; TExpand = seqan::Tag; typename seqan::Size::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1887 | TSize new_capacity = reserve(me, new_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50: required from ‘typename seqan::Size >::Type seqan::resize(String&, TSize, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long int; TExpand = TagGenerous_; typename Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1952 | return _Resize_String >::resize_(me, new_length); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18: required from ‘typename seqan::Size::Type seqan::resize(T&, TSize) [with T = String, Alloc<> >; TSize = long int; typename Size::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2143 | return resize(me, new_length, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/file_format_mmap.h:793:9: required from ‘void seqan::assignSeq(TSeq&, const TFastaSeq&, Fastq) [with TSeq = String, Alloc<> >; TFastaSeq = Segment >, InfixSegment>; Fastq = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 793 | resize(dst, itEnd - it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/file_format_mmap.h:1423:13: required from ‘void seqan::assignSeq(TSeq&, const TFileSeq&, const TagSelector&) [with TSeq = String, Alloc<> >; TFileSeq = Segment >, InfixSegment>; TTagList = TagList, TagList, TagList > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1423 | assignSeq(dst, seq, TFormatTag()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:612:11: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 612 | assignSeq(firstRead, multiFasta[0], format); // read the first sequence /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1444:21: required from ‘void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1444 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1465:31: required from ‘void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1465 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:849:31: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 849 | arrayConstructMove(old_array, old_array + start, seq_array); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: required from ‘typename seqan::Size >::Type seqan::_clearSpace(String&, TSize, TPosition, TPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long unsigned int; TPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1014 | return ClearSpaceStringBase_ >::_clearSpace_(me, size, pos_begin, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1367:67: required from ‘static void seqan::AppendString_::append_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const seqan::String >; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1367 | typename Size::Type part_length = _clearSpace(target, length(source), target_length, target_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42: required from ‘void seqan::append(String&, const TSource&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1421 | AppendString_ >::append_(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_concat_direct.h:318:11: required from ‘void seqan::appendValue(StringSet > >&, const TString2&, Tag) [with TString = String >; TString2 = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 318 | append(me.concat, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:562:14: required from ‘bool seqan::loadReads(TReadSet&, TNameSet&, const char*, TRazerSOptions&) [with TReadSet = StringSet >, Owner > >; TNameSet = StringSet > >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 562 | appendValue(reads, seq, Generous()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:158:19: required from ‘int mapMicroRNAReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 158 | if (!loadReads(readSet, readNames, toCString(readFileNames[0]), options)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:537:34: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 537 | int result = mapMicroRNAReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1589:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1589 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:61: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_iterator.h: In instantiation of ‘typename seqan::Container >::Type seqan::container(ModifiedIterator&) [with THost = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; TSpec = Tag; typename Container >::Type = ModifiedString, Alloc<> >, InfixSegment>, Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:793:18: required from ‘typename seqan::Parameter_::Type seqan::container(Finder&) [with THaystack = ModifiedString, Alloc<> >, InfixSegment>, Tag >; TSpec = void; typename Parameter_::Type = ModifiedString, Alloc<> >, InfixSegment>, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 793 | return container(hostIterator(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1724:42: required from ‘bool seqan::find(TFinder&, const Pattern >&, PatternState_ >&) [with TFinder = Finder, Alloc<> >, InfixSegment>, Tag >, void>; TNeedle = ModifiedString >, InfixSegment>, Tag >; TSpec = FindPrefix; THasState = True; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1724 | TSize haystack_length = length(container(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1756:13: required from ‘bool seqan::find(TFinder&, const Pattern >&, PatternState_ >&, int) [with TFinder = Finder, Alloc<> >, InfixSegment>, Tag >, void>; TNeedle = ModifiedString >, InfixSegment>, Tag >; TSpec = FindPrefix; THasState = True; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1756 | return find(finder, pattern, state); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1774:13: required from ‘bool seqan::find(TFinder&, Pattern >&, int) [with TFinder = Finder, Alloc<> >, InfixSegment>, Tag >, void>; TNeedle = ModifiedString >, InfixSegment>, Tag >; TSpec = FindPrefix; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1774 | return find(finder, pattern, pattern, minScore); //static cast /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1497:13: required from ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal) [with TMatch = ReadMatch; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, InfixSegment>, Myers >, Alloc<> >; TSpec = RazerSSpec<>; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1497 | while (find(myersFinderRev, myersPatternRev, maxScore)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:1736:15: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1736 | matchVerify(m, infix(swiftFinder), rseqNo, readSet, forwardPatterns, options, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:2303:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2303 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:182:25: required from ‘int mapMicroRNAReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 182 | int error = mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:537:34: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 537 | int result = mapMicroRNAReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_iterator.h:294:16: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 294 | TContainer cont(container(host(me))); | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveBackwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1641:30: required from ‘void seqan::arrayMoveBackward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1641 | _arrayMoveBackwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1213:26: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = SimpleType*; TSource1 = SimpleType*; TSource2 = SimpleType*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1213 | arrayMoveBackward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1660:14: required from ‘void seqan::_arrayClearSpacePointer(TValue*, size_t, size_t, size_t, const True&) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1660 | arrayMove(array_begin + keep_from, array_begin + array_length, array_begin + move_to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1681:28: required from ‘void seqan::arrayClearSpace(TValue*, size_t, size_t, size_t) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1681 | _arrayClearSpacePointer(array_begin, array_length, keep_from, move_to, typename IsSimple::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:856:28: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1367:67: required from ‘static void seqan::AppendString_::append_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const seqan::String >; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1367 | typename Size::Type part_length = _clearSpace(target, length(source), target_length, target_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42: required from ‘void seqan::append(String&, const TSource&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1421 | AppendString_ >::append_(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_concat_direct.h:318:11: required from ‘void seqan::appendValue(StringSet > >&, const TString2&, Tag) [with TString = String >; TString2 = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 318 | append(me.concat, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/razers.h:562:14: required from ‘bool seqan::loadReads(TReadSet&, TNameSet&, const char*, TRazerSOptions&) [with TReadSet = StringSet >, Owner > >; TNameSet = StringSet > >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 562 | appendValue(reads, seq, Generous()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:158:19: required from ‘int mapMicroRNAReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 158 | if (!loadReads(readSet, readNames, toCString(readFileNames[0]), options)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:537:34: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 537 | int result = mapMicroRNAReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1621:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1621 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1925:45: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2153:18: required from ‘typename seqan::Size::Type seqan::resize(T&, TSize, const TValue&) [with T = String >; TSize = int; TValue = SimpleType; typename Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2153 | return resize(me, new_length, val, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:484:9: required from ‘void seqan::initPatterns(TStateString&, const TShape&, int, const TLogErrorDistr&, TDistance, bool) [with TStateString = String, double>, Alloc<> >; TShape = String >; TLogErrorDistr = String; TDistance = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 484 | resize(pattern, span, (ErrorAlphabet)SEQAN_MATCH); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:1118:14: required from ‘void seqan::qgramFilteringSensitivity(TSensitivityMatrix&, const TShape&, TPatternSize, TErrors, TThresh, TDistance, ThreshExact, const TErrorDist&) [with TSensitivityMatrix = String; TShape = Shape, GappedShape > >; TPatternSize = unsigned int; TErrors = unsigned int; TThresh = unsigned int; TDistance = Tag; TErrorDist = String; ThreshExact = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1118 | initPatterns(states, bitString, errors, logErrorDistribution, dist, true); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/paramChooser.h:741:42: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 741 | qgramFilteringSensitivity(sensMat, shape, totalN, maxErrors - 1, maxT - 1, HammingDistance(), ThreshExact(), logErrorDistribution); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/paramChooser.h:1310:30: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1310 | makeSelectedStatsFile(errorDistribution, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:456:30: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 456 | if (!chooseParams(options,pm_options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1444:21: required from ‘void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1444 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1465:31: required from ‘void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1465 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:849:31: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 849 | arrayConstructMove(old_array, old_array + start, seq_array); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: required from ‘typename seqan::Size >::Type seqan::_clearSpace(String&, TSize, TPosition, TPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long unsigned int; TPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1014 | return ClearSpaceStringBase_ >::_clearSpace_(me, size, pos_begin, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1048:30: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1845:16: required from ‘void seqan::insertValue(T&, TPosition, const TValue&) [with T = String >; TPosition = int; TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1845 | insertValue(me, pos, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:511:16: required from ‘void seqan::initPatterns(TStateString&, const TShape&, int, const TLogErrorDistr&, TDistance, bool) [with TStateString = String, double>, Alloc<> >; TShape = String >; TLogErrorDistr = String; TDistance = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 511 | insertValue(pattern, mods[i].i1, (ErrorAlphabet)SEQAN_INSERT); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:1118:14: required from ‘void seqan::qgramFilteringSensitivity(TSensitivityMatrix&, const TShape&, TPatternSize, TErrors, TThresh, TDistance, ThreshExact, const TErrorDist&) [with TSensitivityMatrix = String; TShape = Shape, GappedShape > >; TPatternSize = unsigned int; TErrors = unsigned int; TThresh = unsigned int; TDistance = Tag; TErrorDist = String; ThreshExact = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1118 | initPatterns(states, bitString, errors, logErrorDistribution, dist, true); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/paramChooser.h:741:42: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 741 | qgramFilteringSensitivity(sensMat, shape, totalN, maxErrors - 1, maxT - 1, HammingDistance(), ThreshExact(), logErrorDistribution); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/paramChooser.h:1310:30: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1310 | makeSelectedStatsFile(errorDistribution, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:456:30: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 456 | if (!chooseParams(options,pm_options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1589:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1589 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveBackwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1641:30: required from ‘void seqan::arrayMoveBackward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1641 | _arrayMoveBackwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1213:26: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = SimpleType*; TSource1 = SimpleType*; TSource2 = SimpleType*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1213 | arrayMoveBackward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1660:14: required from ‘void seqan::_arrayClearSpacePointer(TValue*, size_t, size_t, size_t, const True&) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1660 | arrayMove(array_begin + keep_from, array_begin + array_length, array_begin + move_to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1681:28: required from ‘void seqan::arrayClearSpace(TValue*, size_t, size_t, size_t) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1681 | _arrayClearSpacePointer(array_begin, array_length, keep_from, move_to, typename IsSimple::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:856:28: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 856 | arrayClearSpace(seq_array + start, old_length - start, removed_size, size); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1845:16: required from ‘void seqan::insertValue(T&, TPosition, const TValue&) [with T = String >; TPosition = int; TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1845 | insertValue(me, pos, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:511:16: required from ‘void seqan::initPatterns(TStateString&, const TShape&, int, const TLogErrorDistr&, TDistance, bool) [with TStateString = String, double>, Alloc<> >; TShape = String >; TLogErrorDistr = String; TDistance = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 511 | insertValue(pattern, mods[i].i1, (ErrorAlphabet)SEQAN_INSERT); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:1118:14: required from ‘void seqan::qgramFilteringSensitivity(TSensitivityMatrix&, const TShape&, TPatternSize, TErrors, TThresh, TDistance, ThreshExact, const TErrorDist&) [with TSensitivityMatrix = String; TShape = Shape, GappedShape > >; TPatternSize = unsigned int; TErrors = unsigned int; TThresh = unsigned int; TDistance = Tag; TErrorDist = String; ThreshExact = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1118 | initPatterns(states, bitString, errors, logErrorDistribution, dist, true); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/paramChooser.h:741:42: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 741 | qgramFilteringSensitivity(sensMat, shape, totalN, maxErrors - 1, maxT - 1, HammingDistance(), ThreshExact(), logErrorDistribution); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/paramChooser.h:1310:30: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1310 | makeSelectedStatsFile(errorDistribution, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:456:30: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 456 | if (!chooseParams(options,pm_options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1621:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1621 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /usr/include/c++/14/string:51: In function ‘std::__copy_move::__copy_m(char const*, char const*, char*)char*’, inlined from ‘std::__copy_move_a2(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:507:30, inlined from ‘std::__copy_move_a1(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:534:42, inlined from ‘std::__copy_move_a(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:541:31, inlined from ‘std::copy(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:637:7, inlined from ‘seqan::_arrayCopyForwardDefault(char const*, char const*, char*)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:855:16, inlined from ‘seqan::arrayCopyForward(char const*, char const*, char*)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:865:29, inlined from ‘seqan::_arrayConstructCopyPointer(char const*, char const*, char*, seqan::True)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21, inlined from ‘seqan::arrayConstructCopy(char const*, char const*, char*)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31, inlined from ‘seqan::AppendString_ >::append_ >, char const>(seqan::String >&, char const&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1368:31, inlined from ‘seqan::append, char, seqan::TagGenerous_>(seqan::String >&, char const&, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42, inlined from ‘seqan::append >, char>(seqan::String >&, char&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1608:11, inlined from ‘seqan::_parse_readShape >, char>(std::basic_fstream >&, char&, seqan::String >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/paramChooser.h:861:15, inlined from ‘seqan::parseGappedParams >, seqan::RazerSSpec >(seqan::RazerSOptions >&, std::basic_fstream >&, seqan::ParamChooserOptions&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/paramChooser.h:1068:25, inlined from ‘seqan::chooseParams >(seqan::RazerSOptions >&, seqan::ParamChooserOptions&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/paramChooser.h:1342:26: /usr/include/c++/14/bits/stl_algobase.h:438:30: warning: ‘memmove’ forming offset 1 is out of the bounds [0, 1] of object ‘c’ with type ‘char’ [-Warray-bounds=] 438 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/micro_razers.cpp:39: /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/paramChooser.h: In function ‘seqan::chooseParams >(seqan::RazerSOptions >&, seqan::ParamChooserOptions&)bool’: /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers/../razers/paramChooser.h:1043:10: note: ‘c’ declared here 1043 | char c = _streamGet(file); | ^ [ 9%] Building CXX object core/apps/micro_razers/CMakeFiles/micro_razers.dir/__/razers/param_tabs.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/micro_razers && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT core/apps/micro_razers/CMakeFiles/micro_razers.dir/__/razers/param_tabs.cpp.o -MF CMakeFiles/micro_razers.dir/__/razers/param_tabs.cpp.o.d -o CMakeFiles/micro_razers.dir/__/razers/param_tabs.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/param_tabs.cpp [ 9%] Linking CXX executable ../../../bin/micro_razers cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/micro_razers && /usr/bin/cmake -E cmake_link_script CMakeFiles/micro_razers.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/micro_razers.dir/micro_razers.cpp.o CMakeFiles/micro_razers.dir/__/razers/param_tabs.cpp.o -o ../../../bin/micro_razers -lrt make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 9%] Built target micro_razers make -f core/apps/pair_align/CMakeFiles/pair_align.dir/build.make core/apps/pair_align/CMakeFiles/pair_align.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/pair_align /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/pair_align /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/pair_align/CMakeFiles/pair_align.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f core/apps/pair_align/CMakeFiles/pair_align.dir/build.make core/apps/pair_align/CMakeFiles/pair_align.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 11%] Building CXX object core/apps/pair_align/CMakeFiles/pair_align.dir/pair_align.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/pair_align && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT core/apps/pair_align/CMakeFiles/pair_align.dir/pair_align.cpp.o -MF CMakeFiles/pair_align.dir/pair_align.cpp.o.d -o CMakeFiles/pair_align.dir/pair_align.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/core/apps/pair_align/pair_align.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/apps/pair_align/pair_align.cpp:19: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/core/apps/pair_align/pair_align.cpp:18: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/stream.h:86, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/score.h:42, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:45, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:131:16: required from ‘seqan::String >::String(const seqan::String >&) [with TValue = seqan::SimpleType; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: 131 | reserve(*this, std::min(capacity(source), computeGenerousCapacity(source, length(source))), Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align/graph_impl_align.h:1892:17: required from ‘bool seqan::convertAlignment(const Graph >&, TMatrix&) [with TStringSet = StringSet, Alloc<> >, Dependent > >; TCargo = void; TSpec = const Tag; TMatrix = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: 1892 | TStringSetStr str = label(g,it->second); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align/graph_impl_align.h:897:22: required from ‘void seqan::write(TFile&, const Graph&, const TNames&, FastaFormat) [with TFile = _IO_FILE*; TSpec = Alignment, Alloc<> >, Dependent > >, void, const Tag >; TNames = StringSet > >; FastaFormat = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: 897 | if (convertAlignment(g, align)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/pair_align/pair_align.cpp:131:14: required from ‘void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutputFormat, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score >; TSeqFile = std::__cxx11::basic_string; TMethod = unsigned int; TDiag = int; TOutputFormat = int; TOutfile = std::__cxx11::basic_string]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: 131 | write(strmWrite, gAlign, sequenceNames, FastaFormat()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/pair_align/pair_align.cpp:215:76: required from ‘void _initAlignParams(const Options&, TScore&) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: 215 | pairwise_align >(sc, seqfile, method, low, high, banded, options.outputFormat, outfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/pair_align/pair_align.cpp:262:31: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: 262 | _initAlignParams(options, sc); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:131:16: required from ‘seqan::String >::String(const seqan::String >&) [with TValue = seqan::SimpleType; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 131 | reserve(*this, std::min(capacity(source), computeGenerousCapacity(source, length(source))), Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align/graph_impl_align.h:1892:17: required from ‘bool seqan::convertAlignment(const Graph >&, TMatrix&) [with TStringSet = StringSet, Alloc<> >, Dependent > >; TCargo = void; TSpec = const Tag; TMatrix = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1892 | TStringSetStr str = label(g,it->second); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align/graph_impl_align.h:897:22: required from ‘void seqan::write(TFile&, const Graph&, const TNames&, FastaFormat) [with TFile = _IO_FILE*; TSpec = Alignment, Alloc<> >, Dependent > >, void, const Tag >; TNames = StringSet > >; FastaFormat = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 897 | if (convertAlignment(g, align)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/pair_align/pair_align.cpp:131:14: required from ‘void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutputFormat, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score >; TSeqFile = std::__cxx11::basic_string; TMethod = unsigned int; TDiag = int; TOutputFormat = int; TOutfile = std::__cxx11::basic_string]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 131 | write(strmWrite, gAlign, sequenceNames, FastaFormat()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/pair_align/pair_align.cpp:215:76: required from ‘void _initAlignParams(const Options&, TScore&) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 215 | pairwise_align >(sc, seqfile, method, low, high, banded, options.outputFormat, outfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/pair_align/pair_align.cpp:298:31: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 298 | _initAlignParams(options, sc); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:131:16: required from ‘seqan::String >::String(const seqan::String >&) [with TValue = seqan::SimpleType; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 131 | reserve(*this, std::min(capacity(source), computeGenerousCapacity(source, length(source))), Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align/graph_impl_align.h:1892:17: required from ‘bool seqan::convertAlignment(const Graph >&, TMatrix&) [with TStringSet = StringSet, Alloc<> >, Dependent > >; TCargo = void; TSpec = const Tag; TMatrix = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1892 | TStringSetStr str = label(g,it->second); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align/graph_impl_align.h:897:22: required from ‘void seqan::write(TFile&, const Graph&, const TNames&, FastaFormat) [with TFile = _IO_FILE*; TSpec = Alignment, Alloc<> >, Dependent > >, void, const Tag >; TNames = StringSet > >; FastaFormat = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 897 | if (convertAlignment(g, align)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/pair_align/pair_align.cpp:131:14: required from ‘void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutputFormat, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score >; TSeqFile = std::__cxx11::basic_string; TMethod = unsigned int; TDiag = int; TOutputFormat = int; TOutfile = std::__cxx11::basic_string]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 131 | write(strmWrite, gAlign, sequenceNames, FastaFormat()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/pair_align/pair_align.cpp:215:76: required from ‘void _initAlignParams(const Options&, TScore&) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 215 | pairwise_align >(sc, seqfile, method, low, high, banded, options.outputFormat, outfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/pair_align/pair_align.cpp:316:36: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 316 | _initAlignParams(options, sc); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Alloc >, seqan::String >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Alloc >&, seqan::String >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, void, unsigned long>(seqan::String >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Alloc > >(seqan::String >, seqan::Alloc >&, seqan::Size >, seqan::Alloc > >::Type)seqan::Size >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize >, seqan::Alloc >, unsigned long>(seqan::String >, seqan::Alloc >&, unsigned long)seqan::Size >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack >, seqan::Alloc > >(seqan::String >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::HtmlToolDocPrinter_::_toHtml > >(seqan::String > const&) constseqan::String > [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/tool_doc.h:284:34: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551568’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘seqan::HtmlToolDocPrinter_::_toHtml > >(seqan::String > const&) constseqan::String > [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ [ 11%] Linking CXX executable ../../../bin/pair_align cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/pair_align && /usr/bin/cmake -E cmake_link_script CMakeFiles/pair_align.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/pair_align.dir/pair_align.cpp.o -o ../../../bin/pair_align -lrt In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toHtml’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/tool_doc.h:284:34: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551568’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘_toHtml’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 11%] Built target pair_align make -f core/apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build.make core/apps/rabema/CMakeFiles/rabema_prepare_sam.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/rabema /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/rabema/CMakeFiles/rabema_prepare_sam.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f core/apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build.make core/apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 12%] Building CXX object core/apps/rabema/CMakeFiles/rabema_prepare_sam.dir/prepare_sam.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/rabema && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT core/apps/rabema/CMakeFiles/rabema_prepare_sam.dir/prepare_sam.cpp.o -MF CMakeFiles/rabema_prepare_sam.dir/prepare_sam.cpp.o.d -o CMakeFiles/rabema_prepare_sam.dir/prepare_sam.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/prepare_sam.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:45, from /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/prepare_sam.cpp:29: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/prepare_sam.cpp:27: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:48: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_stream.h:50, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:107: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:44: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:120:16: required from ‘seqan::String >::String(seqan::String >&) [with TValue = seqan::SimpleType; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 120 | reserve(*this, std::min(capacity(source), computeGenerousCapacity(source, length(source))), Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/prepare_sam.cpp:80:29: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 80 | Dna5String seqFirstRC = seqFirst; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 12%] Linking CXX executable ../../../bin/rabema_prepare_sam cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/rabema && /usr/bin/cmake -E cmake_link_script CMakeFiles/rabema_prepare_sam.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/rabema_prepare_sam.dir/prepare_sam.cpp.o -o ../../../bin/rabema_prepare_sam -lrt -L/usr/lib64 -lz In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 12%] Built target rabema_prepare_sam make -f core/apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build.make core/apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/rabema /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f core/apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build.make core/apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 12%] Building CXX object core/apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/rabema && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT core/apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o -MF CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o.d -o CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/rabema_build_gold_standard.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:45, from /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/rabema_build_gold_standard.cpp:35: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/rabema_build_gold_standard.cpp:31: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/rabema_build_gold_standard.cpp:36: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_stream.h:50, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:107: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/rabema_build_gold_standard.cpp:42: /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/curve_smoothing.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/curve_smoothing.h:105:10: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 105 | std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_iterator.h:65, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:86, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:44: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment, seqan::InfixSegment>; TIterator = WeightedMatch*; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_iterator.h:88:7: required from here /usr/include/c++/14/bits/stl_function.h:131:12: note: 88 | class ModifiedIterator /usr/include/c++/14/bits/stl_function.h:131:12: note: | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:147:15: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 147 | : data_container(other_.data_container), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:93, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:92: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:77: required from ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/curve_smoothing.h:254:100: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 254 | TModifiedString rRightInterval(infix(errorCurve, rightmostPos, offset + intervalLength)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_endDefault(T&, Rooted) [with T = Segment, InfixSegment>; typename Iterator >::Type = Iter, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:841:23: required from ‘typename seqan::Iterator >::Type seqan::end(T&, Tag) [with T = Segment, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, InfixSegment>, AdaptorIterator > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 841 | return _endDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_reverse.h:463:24: required from ‘typename seqan::Iterator >, const seqan::Tag >::Type seqan::begin(ModifiedString >&, Tag) [with THost = Segment, InfixSegment>; TTagSpec = Standard_; typename Iterator >, const Tag >::Type = ModifiedIterator, InfixSegment>, AdaptorIterator > >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 463 | TIterator temp_(end(host(me), Rooted())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/curve_smoothing.h:257:52: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 257 | for (TModifiedStringIterator it = begin(rRightInterval, Standard()); it != end(rRightInterval, Standard()); ++it) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:768:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 768 | return TIterator(me, end(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::InfixSegment>; TIterator = WeightedMatch*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(T&, Rooted) [with T = Segment, InfixSegment>; typename Iterator >::Type = Iter, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:616:25: required from ‘typename seqan::Iterator >::Type seqan::begin(T&, Tag) [with T = Segment, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, InfixSegment>, AdaptorIterator > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 616 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_reverse.h:507:97: required from ‘typename seqan::Iterator >, const seqan::Tag >::Type seqan::end(ModifiedString >&, Tag) [with THost = Segment, InfixSegment>; TTagSpec = Standard_; typename Iterator >, const Tag >::Type = ModifiedIterator, InfixSegment>, AdaptorIterator > >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 507 | typename Iterator, Tag const >::Type temp_(begin(host(me), Rooted())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/curve_smoothing.h:257:91: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 257 | for (TModifiedStringIterator it = begin(rRightInterval, Standard()); it != end(rRightInterval, Standard()); ++it) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:532:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 532 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::InfixSegment>; TIterator = WeightedMatch*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_reverse.h: In instantiation of ‘seqan::ModifiedString > seqan::reverseString(THost&) [with THost = const Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_begin.h:218:55: required from ‘static void seqan::FindBeginImpl_ >::_findBeginInit(TPattern&, TNeedle&) [with TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Myers >; TNeedle = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; THasState = seqan::True]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 218 | setHost(pattern.data_findBeginPattern, reverseString(needle_)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_begin.h:336:62: required from ‘void seqan::_findBeginInit(TPattern&, TNeedle&) [with TPattern = Pattern, Alloc<> >, InfixSegment>, Myers >; TNeedle = const Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 336 | return FindBeginImpl_::_findBeginInit(pattern, needle_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:591:16: required from ‘void seqan::_patternFirstInit(Pattern >&, TNeedle2&) [with TNeedle = Segment, Alloc<> >, InfixSegment>; TSpec = FindInfix; THasState = True; TFindBeginPatternSpec = Myers; TNeedle2 = const Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 591 | _findBeginInit(pattern, needle); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:723:19: required from ‘void seqan::setHost(Pattern >&, const TNeedle2&) [with TNeedle = Segment, Alloc<> >, InfixSegment>; TSpec = FindInfix; THasState = True; TFindBeginPatternSpec = Myers; TNeedle2 = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 723 | _patternFirstInit(pattern, ndl); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:497:10: required from ‘seqan::Pattern >::Pattern(const TNeedle2&, int) [with TNeedle2 = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TNeedle = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::FindInfix; THasState = seqan::True; TFindBeginPatternSpec = seqan::Myers]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 497 | setHost(*this, ndl); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/find_myers_ukkonen_reads.h:108:9: required from ‘seqan::Pattern >::Pattern(TNeedle2&, int) [with TNeedle2 = seqan::String, seqan::Alloc<> >; TNeedle = seqan::String, seqan::Alloc<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 108 | _wrappedPattern(infix(ndl, 0, length(ndl) - 1), score), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/rabema_build_gold_standard.cpp:411:41: required from ‘void buildErrorCurvePoints(seqan::String&, int&, TContigSeq&, size_t, bool, TReadSeq&, size_t, size_t, const TReadNames&, bool, const TPatternSpec&) [with TContigSeq = seqan::String, seqan::Alloc<> >; TReadSeq = seqan::String, seqan::Alloc<> >; TPatternSpec = seqan::Tag; TReadNames = seqan::StringSet > >; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 411 | Pattern pattern(read, -(int)length(read) * 40); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/rabema_build_gold_standard.cpp:901:34: required from ‘int matchesToErrorFunction(TErrorCurves&, seqan::String&, TStreamOrReader&, seqan::BamIOContext > > >&, seqan::StringSet > >&, const seqan::StringSet > >&, const seqan::FaiIndex&, const BuildGoldStandardOptions&, const TPatternSpec&, const TFormat&) [with TPatternSpec = seqan::Tag; TStreamOrReader = seqan::RecordReader, seqan::SinglePass >; TFormat = seqan::Tag; TErrorCurves = std::map >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 901 | buildErrorCurvePoints(errorCurves[readId], maxError, contig, record.rID, !hasFlagRC(record), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 902 | readSeq, readId, endPos, readNameStore, options.matchN, TPatternSpec()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/rabema_build_gold_standard.cpp:1252:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1252 | res = matchesToErrorFunction(errorCurves, readAlignmentDistances, samReader, bamIOContext, readNameStore, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1253 | refNameStore, faiIndex, options, MyersUkkonenReads(), Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_reverse.h:624:16: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 624 | return ModifiedString(host); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:77: required from ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_reverse.h:624:9: required from ‘seqan::ModifiedString > seqan::reverseString(THost&) [with THost = const Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 624 | return ModifiedString(host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_begin.h:218:55: required from ‘static void seqan::FindBeginImpl_ >::_findBeginInit(TPattern&, TNeedle&) [with TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Myers >; TNeedle = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; THasState = seqan::True]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 218 | setHost(pattern.data_findBeginPattern, reverseString(needle_)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_begin.h:336:62: required from ‘void seqan::_findBeginInit(TPattern&, TNeedle&) [with TPattern = Pattern, Alloc<> >, InfixSegment>, Myers >; TNeedle = const Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 336 | return FindBeginImpl_::_findBeginInit(pattern, needle_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:591:16: required from ‘void seqan::_patternFirstInit(Pattern >&, TNeedle2&) [with TNeedle = Segment, Alloc<> >, InfixSegment>; TSpec = FindInfix; THasState = True; TFindBeginPatternSpec = Myers; TNeedle2 = const Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 591 | _findBeginInit(pattern, needle); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:723:19: required from ‘void seqan::setHost(Pattern >&, const TNeedle2&) [with TNeedle = Segment, Alloc<> >, InfixSegment>; TSpec = FindInfix; THasState = True; TFindBeginPatternSpec = Myers; TNeedle2 = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 723 | _patternFirstInit(pattern, ndl); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:497:10: required from ‘seqan::Pattern >::Pattern(const TNeedle2&, int) [with TNeedle2 = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TNeedle = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::FindInfix; THasState = seqan::True; TFindBeginPatternSpec = seqan::Myers]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 497 | setHost(*this, ndl); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/find_myers_ukkonen_reads.h:108:9: required from ‘seqan::Pattern >::Pattern(TNeedle2&, int) [with TNeedle2 = seqan::String, seqan::Alloc<> >; TNeedle = seqan::String, seqan::Alloc<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 108 | _wrappedPattern(infix(ndl, 0, length(ndl) - 1), score), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/rabema_build_gold_standard.cpp:411:41: required from ‘void buildErrorCurvePoints(seqan::String&, int&, TContigSeq&, size_t, bool, TReadSeq&, size_t, size_t, const TReadNames&, bool, const TPatternSpec&) [with TContigSeq = seqan::String, seqan::Alloc<> >; TReadSeq = seqan::String, seqan::Alloc<> >; TPatternSpec = seqan::Tag; TReadNames = seqan::StringSet > >; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 411 | Pattern pattern(read, -(int)length(read) * 40); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/rabema_build_gold_standard.cpp:901:34: required from ‘int matchesToErrorFunction(TErrorCurves&, seqan::String&, TStreamOrReader&, seqan::BamIOContext > > >&, seqan::StringSet > >&, const seqan::StringSet > >&, const seqan::FaiIndex&, const BuildGoldStandardOptions&, const TPatternSpec&, const TFormat&) [with TPatternSpec = seqan::Tag; TStreamOrReader = seqan::RecordReader, seqan::SinglePass >; TFormat = seqan::Tag; TErrorCurves = std::map >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 901 | buildErrorCurvePoints(errorCurves[readId], maxError, contig, record.rID, !hasFlagRC(record), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 902 | readSeq, readId, endPos, readNameStore, options.matchN, TPatternSpec()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/rabema_build_gold_standard.cpp:1252:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1252 | res = matchesToErrorFunction(errorCurves, readAlignmentDistances, samReader, bamIOContext, readNameStore, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1253 | refNameStore, faiIndex, options, MyersUkkonenReads(), Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1964:50: required from ‘typename seqan::Size >::Type seqan::resize(String&, TSize, const TValue2&, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = unsigned int; TValue2 = SimpleType; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1964 | return _Resize_String >::resize_(me, new_length, val); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2153:18: required from ‘typename seqan::Size::Type seqan::resize(T&, TSize, const TValue&) [with T = String, Alloc<> >; TSize = unsigned int; TValue = SimpleType; typename Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2153 | return resize(me, new_length, val, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/fai_index.h:426:11: required from ‘int seqan::readRegion(String&, const FaiIndex&, unsigned int, unsigned int, unsigned int) [with TValue = SimpleType; TSpec = Alloc<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 426 | resize(str, toRead, TValue()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/fai_index.h:505:22: required from ‘int seqan::readSequence(String&, const FaiIndex&, unsigned int) [with TValue = SimpleType; TSpec = Alloc<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 505 | return readRegion(str, index, refId, 0, sequenceLength(index, refId)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/rabema_build_gold_standard.cpp:869:29: required from ‘int matchesToErrorFunction(TErrorCurves&, seqan::String&, TStreamOrReader&, seqan::BamIOContext > > >&, seqan::StringSet > >&, const seqan::StringSet > >&, const seqan::FaiIndex&, const BuildGoldStandardOptions&, const TPatternSpec&, const TFormat&) [with TPatternSpec = seqan::Tag; TStreamOrReader = seqan::RecordReader, seqan::SinglePass >; TFormat = seqan::Tag; TErrorCurves = std::map >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 869 | if (readSequence(contig, faiIndex, faiRefId) != 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/rabema_build_gold_standard.cpp:1252:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1252 | res = matchesToErrorFunction(errorCurves, readAlignmentDistances, samReader, bamIOContext, readNameStore, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1253 | refNameStore, faiIndex, options, MyersUkkonenReads(), Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 14%] Linking CXX executable ../../../bin/rabema_build_gold_standard cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/rabema && /usr/bin/cmake -E cmake_link_script CMakeFiles/rabema_build_gold_standard.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o -o ../../../bin/rabema_build_gold_standard -lrt -L/usr/lib64 -lz In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 14%] Built target rabema_build_gold_standard make -f core/apps/rabema/CMakeFiles/rabema_evaluate.dir/build.make core/apps/rabema/CMakeFiles/rabema_evaluate.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/rabema /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/rabema/CMakeFiles/rabema_evaluate.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f core/apps/rabema/CMakeFiles/rabema_evaluate.dir/build.make core/apps/rabema/CMakeFiles/rabema_evaluate.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 16%] Building CXX object core/apps/rabema/CMakeFiles/rabema_evaluate.dir/rabema_evaluate.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/rabema && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT core/apps/rabema/CMakeFiles/rabema_evaluate.dir/rabema_evaluate.cpp.o -MF CMakeFiles/rabema_evaluate.dir/rabema_evaluate.cpp.o.d -o CMakeFiles/rabema_evaluate.dir/rabema_evaluate.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/rabema_evaluate.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:45, from /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/rabema_evaluate.cpp:28: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:44: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/rabema_evaluate.cpp:29: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_stream.h:50, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:107: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:55: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h: In instantiation of ‘void seqan::findIntervals(const Graph&, const TPropertyMap&, TValue, String&) [with TSpec = Directed >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TValue = unsigned int; TCargo = unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:1886:15: required from ‘void seqan::findIntervals(const IntervalTree&, TValue, String&) [with TValue = unsigned int; TCargo = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1886 | findIntervals(it.g,it.pm,query,result); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/rabema_evaluate.cpp:635:22: required from ‘int benchmarkReadResult(RabemaStats&, const seqan::String&, const seqan::BamIOContext > > >&, const seqan::String&, const seqan::StringSet > >&, const seqan::NameStoreCache > > >&, const seqan::StringSet, seqan::Alloc<> > >&, const RefIdMapping&, const RabemaEvaluationOptions&, const TPatternSpec&, bool, bool) [with TPatternSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 635 | findIntervals(intervalTrees[seqId], lastPos, queryResult); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/rabema_evaluate.cpp:976:42: required from ‘int compareAlignedReadsToReference(RabemaStats&, TStreamOrReader&, seqan::BamIOContext > > >&, const seqan::StringSet > >&, const seqan::NameStoreCache > > >&, const seqan::StringSet, seqan::Alloc<> > >&, seqan::RecordReader&, const RabemaEvaluationOptions&, const TPatternSpec&, const TFormat&) [with TStreamOrReader = seqan::RecordReader, seqan::SinglePass >; TGsiStream = seqan::Stream >; TGsiStreamSpec = seqan::SinglePass; TPatternSpec = seqan::Tag; TFormat = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 976 | int res = benchmarkReadResult(result, currentSamRecords, bamIOContext, currentGsiRecords, refNameStore, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 977 | refNameStoreCache, refSeqs, refIdMapping, options, tagPattern, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 978 | /*pairedEnd=*/ false); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/rabema_evaluate.cpp:1402:49: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1402 | res = compareAlignedReadsToReference(result, samReader, bamIOContext, refNameStore, refNameStoreCache, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1403 | refSeqs, gsiReader, options, MyersUkkonenReads(), Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:1827:26: warning: implicitly-declared ‘seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)’ is deprecated [-Wdeprecated-copy] 1827 | act_prop = property(pm,act_knot); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: because ‘seqan::IntervalTreeNode, seqan::StorePointsOnly>’ has user-provided ‘seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]’ 398 | IntervalTreeNode(IntervalTreeNode const & other): | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:1838:43: warning: implicitly-declared ‘seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)’ is deprecated [-Wdeprecated-copy] 1838 | next_prop = property(pm,targetVertex(it)); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: because ‘seqan::IntervalTreeNode, seqan::StorePointsOnly>’ has user-provided ‘seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]’ 398 | IntervalTreeNode(IntervalTreeNode const & other): | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:1859:51: warning: implicitly-declared ‘seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)’ is deprecated [-Wdeprecated-copy] 1859 | next_prop = property(pm,targetVertex(it)); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: because ‘seqan::IntervalTreeNode, seqan::StorePointsOnly>’ has user-provided ‘seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]’ 398 | IntervalTreeNode(IntervalTreeNode const & other): | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/rabema_evaluate.cpp:1311:16: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 1311 | reserve(refSeqs[i], sequenceLength(faiIndex, i), Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_reverse.h: In instantiation of ‘seqan::ModifiedString > seqan::reverseString(THost&) [with THost = const Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_begin.h:218:55: required from ‘static void seqan::FindBeginImpl_ >::_findBeginInit(TPattern&, TNeedle&) [with TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Myers >; TNeedle = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; THasState = seqan::True]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 218 | setHost(pattern.data_findBeginPattern, reverseString(needle_)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_begin.h:336:62: required from ‘void seqan::_findBeginInit(TPattern&, TNeedle&) [with TPattern = Pattern, Alloc<> >, InfixSegment>, Myers >; TNeedle = const Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 336 | return FindBeginImpl_::_findBeginInit(pattern, needle_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:591:16: required from ‘void seqan::_patternFirstInit(Pattern >&, TNeedle2&) [with TNeedle = Segment, Alloc<> >, InfixSegment>; TSpec = FindInfix; THasState = True; TFindBeginPatternSpec = Myers; TNeedle2 = const Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 591 | _findBeginInit(pattern, needle); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:723:19: required from ‘void seqan::setHost(Pattern >&, const TNeedle2&) [with TNeedle = Segment, Alloc<> >, InfixSegment>; TSpec = FindInfix; THasState = True; TFindBeginPatternSpec = Myers; TNeedle2 = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 723 | _patternFirstInit(pattern, ndl); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:497:10: required from ‘seqan::Pattern >::Pattern(const TNeedle2&, int) [with TNeedle2 = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TNeedle = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::FindInfix; THasState = seqan::True; TFindBeginPatternSpec = seqan::Myers]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 497 | setHost(*this, ndl); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/find_myers_ukkonen_reads.h:108:9: required from ‘seqan::Pattern >::Pattern(TNeedle2&, int) [with TNeedle2 = seqan::String, seqan::Alloc<> >; TNeedle = seqan::String, seqan::Alloc<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 108 | _wrappedPattern(infix(ndl, 0, length(ndl) - 1), score), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/rabema_evaluate.cpp:611:51: required from ‘int benchmarkReadResult(RabemaStats&, const seqan::String&, const seqan::BamIOContext > > >&, const seqan::String&, const seqan::StringSet > >&, const seqan::NameStoreCache > > >&, const seqan::StringSet, seqan::Alloc<> > >&, const RefIdMapping&, const RabemaEvaluationOptions&, const TPatternSpec&, bool, bool) [with TPatternSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 611 | Pattern pattern(readSeq, -static_cast(length(readSeq)) * 1000); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/rabema_evaluate.cpp:976:42: required from ‘int compareAlignedReadsToReference(RabemaStats&, TStreamOrReader&, seqan::BamIOContext > > >&, const seqan::StringSet > >&, const seqan::NameStoreCache > > >&, const seqan::StringSet, seqan::Alloc<> > >&, seqan::RecordReader&, const RabemaEvaluationOptions&, const TPatternSpec&, const TFormat&) [with TStreamOrReader = seqan::RecordReader, seqan::SinglePass >; TGsiStream = seqan::Stream >; TGsiStreamSpec = seqan::SinglePass; TPatternSpec = seqan::Tag; TFormat = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 976 | int res = benchmarkReadResult(result, currentSamRecords, bamIOContext, currentGsiRecords, refNameStore, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 977 | refNameStoreCache, refSeqs, refIdMapping, options, tagPattern, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 978 | /*pairedEnd=*/ false); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/rabema_evaluate.cpp:1402:49: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1402 | res = compareAlignedReadsToReference(result, samReader, bamIOContext, refNameStore, refNameStoreCache, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1403 | refSeqs, gsiReader, options, MyersUkkonenReads(), Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_reverse.h:624:16: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 624 | return ModifiedString(host); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:93, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:92: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:77: required from ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_reverse.h:624:9: required from ‘seqan::ModifiedString > seqan::reverseString(THost&) [with THost = const Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 624 | return ModifiedString(host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_begin.h:218:55: required from ‘static void seqan::FindBeginImpl_ >::_findBeginInit(TPattern&, TNeedle&) [with TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Myers >; TNeedle = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; THasState = seqan::True]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 218 | setHost(pattern.data_findBeginPattern, reverseString(needle_)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_begin.h:336:62: required from ‘void seqan::_findBeginInit(TPattern&, TNeedle&) [with TPattern = Pattern, Alloc<> >, InfixSegment>, Myers >; TNeedle = const Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 336 | return FindBeginImpl_::_findBeginInit(pattern, needle_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:591:16: required from ‘void seqan::_patternFirstInit(Pattern >&, TNeedle2&) [with TNeedle = Segment, Alloc<> >, InfixSegment>; TSpec = FindInfix; THasState = True; TFindBeginPatternSpec = Myers; TNeedle2 = const Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 591 | _findBeginInit(pattern, needle); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:723:19: required from ‘void seqan::setHost(Pattern >&, const TNeedle2&) [with TNeedle = Segment, Alloc<> >, InfixSegment>; TSpec = FindInfix; THasState = True; TFindBeginPatternSpec = Myers; TNeedle2 = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 723 | _patternFirstInit(pattern, ndl); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:497:10: required from ‘seqan::Pattern >::Pattern(const TNeedle2&, int) [with TNeedle2 = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TNeedle = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::FindInfix; THasState = seqan::True; TFindBeginPatternSpec = seqan::Myers]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 497 | setHost(*this, ndl); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/find_myers_ukkonen_reads.h:108:9: required from ‘seqan::Pattern >::Pattern(TNeedle2&, int) [with TNeedle2 = seqan::String, seqan::Alloc<> >; TNeedle = seqan::String, seqan::Alloc<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 108 | _wrappedPattern(infix(ndl, 0, length(ndl) - 1), score), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/rabema_evaluate.cpp:611:51: required from ‘int benchmarkReadResult(RabemaStats&, const seqan::String&, const seqan::BamIOContext > > >&, const seqan::String&, const seqan::StringSet > >&, const seqan::NameStoreCache > > >&, const seqan::StringSet, seqan::Alloc<> > >&, const RefIdMapping&, const RabemaEvaluationOptions&, const TPatternSpec&, bool, bool) [with TPatternSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 611 | Pattern pattern(readSeq, -static_cast(length(readSeq)) * 1000); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/rabema_evaluate.cpp:976:42: required from ‘int compareAlignedReadsToReference(RabemaStats&, TStreamOrReader&, seqan::BamIOContext > > >&, const seqan::StringSet > >&, const seqan::NameStoreCache > > >&, const seqan::StringSet, seqan::Alloc<> > >&, seqan::RecordReader&, const RabemaEvaluationOptions&, const TPatternSpec&, const TFormat&) [with TStreamOrReader = seqan::RecordReader, seqan::SinglePass >; TGsiStream = seqan::Stream >; TGsiStreamSpec = seqan::SinglePass; TPatternSpec = seqan::Tag; TFormat = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 976 | int res = benchmarkReadResult(result, currentSamRecords, bamIOContext, currentGsiRecords, refNameStore, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 977 | refNameStoreCache, refSeqs, refIdMapping, options, tagPattern, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 978 | /*pairedEnd=*/ false); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/rabema_evaluate.cpp:1402:49: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1402 | res = compareAlignedReadsToReference(result, samReader, bamIOContext, refNameStore, refNameStoreCache, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1403 | refSeqs, gsiReader, options, MyersUkkonenReads(), Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 16%] Linking CXX executable ../../../bin/rabema_evaluate cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/rabema && /usr/bin/cmake -E cmake_link_script CMakeFiles/rabema_evaluate.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/rabema_evaluate.dir/rabema_evaluate.cpp.o -o ../../../bin/rabema_evaluate -lrt -L/usr/lib64 -lz In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 16%] Built target rabema_evaluate make -f core/apps/rabema/CMakeFiles/rabema_do_search.dir/build.make core/apps/rabema/CMakeFiles/rabema_do_search.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/rabema /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/rabema/CMakeFiles/rabema_do_search.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f core/apps/rabema/CMakeFiles/rabema_do_search.dir/build.make core/apps/rabema/CMakeFiles/rabema_do_search.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 16%] Building CXX object core/apps/rabema/CMakeFiles/rabema_do_search.dir/do_search.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/rabema && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT core/apps/rabema/CMakeFiles/rabema_do_search.dir/do_search.cpp.o -MF CMakeFiles/rabema_do_search.dir/do_search.cpp.o.d -o CMakeFiles/rabema_do_search.dir/do_search.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/do_search.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:44, from /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/do_search.cpp:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/do_search.cpp:3: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/stream.h:86, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/score.h:42, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/do_search.cpp:11: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/do_search.cpp:13: /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/curve_smoothing.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/curve_smoothing.h:105:10: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 105 | std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_iterator.h:65, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:86, from /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/do_search.cpp:7: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment, seqan::InfixSegment>; TIterator = WeightedMatch*; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_iterator.h:88:7: required from here /usr/include/c++/14/bits/stl_function.h:131:12: note: 88 | class ModifiedIterator /usr/include/c++/14/bits/stl_function.h:131:12: note: | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:147:15: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 147 | : data_container(other_.data_container), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:93, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:43: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:92: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:77: required from ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/curve_smoothing.h:254:100: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 254 | TModifiedString rRightInterval(infix(errorCurve, rightmostPos, offset + intervalLength)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_endDefault(T&, Rooted) [with T = Segment, InfixSegment>; typename Iterator >::Type = Iter, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:841:23: required from ‘typename seqan::Iterator >::Type seqan::end(T&, Tag) [with T = Segment, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, InfixSegment>, AdaptorIterator > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 841 | return _endDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_reverse.h:463:24: required from ‘typename seqan::Iterator >, const seqan::Tag >::Type seqan::begin(ModifiedString >&, Tag) [with THost = Segment, InfixSegment>; TTagSpec = Standard_; typename Iterator >, const Tag >::Type = ModifiedIterator, InfixSegment>, AdaptorIterator > >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 463 | TIterator temp_(end(host(me), Rooted())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/curve_smoothing.h:257:52: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 257 | for (TModifiedStringIterator it = begin(rRightInterval, Standard()); it != end(rRightInterval, Standard()); ++it) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:768:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 768 | return TIterator(me, end(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::InfixSegment>; TIterator = WeightedMatch*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(T&, Rooted) [with T = Segment, InfixSegment>; typename Iterator >::Type = Iter, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:616:25: required from ‘typename seqan::Iterator >::Type seqan::begin(T&, Tag) [with T = Segment, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, InfixSegment>, AdaptorIterator > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 616 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_reverse.h:507:97: required from ‘typename seqan::Iterator >, const seqan::Tag >::Type seqan::end(ModifiedString >&, Tag) [with THost = Segment, InfixSegment>; TTagSpec = Standard_; typename Iterator >, const Tag >::Type = ModifiedIterator, InfixSegment>, AdaptorIterator > >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 507 | typename Iterator, Tag const >::Type temp_(begin(host(me), Rooted())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/curve_smoothing.h:257:91: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 257 | for (TModifiedStringIterator it = begin(rRightInterval, Standard()); it != end(rRightInterval, Standard()); ++it) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:532:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 532 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::InfixSegment>; TIterator = WeightedMatch*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:131:16: required from ‘seqan::String >::String(const seqan::String >&) [with TValue = seqan::SimpleType; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 131 | reserve(*this, std::min(capacity(source), computeGenerousCapacity(source, length(source))), Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/do_search.cpp:23:31: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 23 | Dna5String contig = argv[1]; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_reverse.h: In instantiation of ‘seqan::ModifiedString > seqan::reverseString(THost&) [with THost = const Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_begin.h:218:55: required from ‘static void seqan::FindBeginImpl_ >::_findBeginInit(TPattern&, TNeedle&) [with TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Myers >; TNeedle = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; THasState = seqan::True]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 218 | setHost(pattern.data_findBeginPattern, reverseString(needle_)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_begin.h:336:62: required from ‘void seqan::_findBeginInit(TPattern&, TNeedle&) [with TPattern = Pattern, Alloc<> >, InfixSegment>, Myers >; TNeedle = const Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 336 | return FindBeginImpl_::_findBeginInit(pattern, needle_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:591:16: required from ‘void seqan::_patternFirstInit(Pattern >&, TNeedle2&) [with TNeedle = Segment, Alloc<> >, InfixSegment>; TSpec = FindInfix; THasState = True; TFindBeginPatternSpec = Myers; TNeedle2 = const Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 591 | _findBeginInit(pattern, needle); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:723:19: required from ‘void seqan::setHost(Pattern >&, const TNeedle2&) [with TNeedle = Segment, Alloc<> >, InfixSegment>; TSpec = FindInfix; THasState = True; TFindBeginPatternSpec = Myers; TNeedle2 = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 723 | _patternFirstInit(pattern, ndl); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:497:10: required from ‘seqan::Pattern >::Pattern(const TNeedle2&, int) [with TNeedle2 = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TNeedle = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::FindInfix; THasState = seqan::True; TFindBeginPatternSpec = seqan::Myers]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 497 | setHost(*this, ndl); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/find_myers_ukkonen_reads.h:108:9: required from ‘seqan::Pattern >::Pattern(TNeedle2&, int) [with TNeedle2 = seqan::String, seqan::Alloc<> >; TNeedle = seqan::String, seqan::Alloc<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 108 | _wrappedPattern(infix(ndl, 0, length(ndl) - 1), score), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/do_search.cpp:27:89: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 27 | Pattern pattern(read, -static_cast(length(read))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_reverse.h:624:16: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 624 | return ModifiedString(host); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:77: required from ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_reverse.h:624:9: required from ‘seqan::ModifiedString > seqan::reverseString(THost&) [with THost = const Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 624 | return ModifiedString(host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_begin.h:218:55: required from ‘static void seqan::FindBeginImpl_ >::_findBeginInit(TPattern&, TNeedle&) [with TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Myers >; TNeedle = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; THasState = seqan::True]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 218 | setHost(pattern.data_findBeginPattern, reverseString(needle_)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_begin.h:336:62: required from ‘void seqan::_findBeginInit(TPattern&, TNeedle&) [with TPattern = Pattern, Alloc<> >, InfixSegment>, Myers >; TNeedle = const Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 336 | return FindBeginImpl_::_findBeginInit(pattern, needle_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:591:16: required from ‘void seqan::_patternFirstInit(Pattern >&, TNeedle2&) [with TNeedle = Segment, Alloc<> >, InfixSegment>; TSpec = FindInfix; THasState = True; TFindBeginPatternSpec = Myers; TNeedle2 = const Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 591 | _findBeginInit(pattern, needle); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:723:19: required from ‘void seqan::setHost(Pattern >&, const TNeedle2&) [with TNeedle = Segment, Alloc<> >, InfixSegment>; TSpec = FindInfix; THasState = True; TFindBeginPatternSpec = Myers; TNeedle2 = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 723 | _patternFirstInit(pattern, ndl); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:497:10: required from ‘seqan::Pattern >::Pattern(const TNeedle2&, int) [with TNeedle2 = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TNeedle = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::FindInfix; THasState = seqan::True; TFindBeginPatternSpec = seqan::Myers]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 497 | setHost(*this, ndl); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/find_myers_ukkonen_reads.h:108:9: required from ‘seqan::Pattern >::Pattern(TNeedle2&, int) [with TNeedle2 = seqan::String, seqan::Alloc<> >; TNeedle = seqan::String, seqan::Alloc<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 108 | _wrappedPattern(infix(ndl, 0, length(ndl) - 1), score), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/do_search.cpp:27:89: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 27 | Pattern pattern(read, -static_cast(length(read))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema/do_search.cpp:2: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 16%] Linking CXX executable ../../../bin/rabema_do_search cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/rabema && /usr/bin/cmake -E cmake_link_script CMakeFiles/rabema_do_search.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/rabema_do_search.dir/do_search.cpp.o -o ../../../bin/rabema_do_search -lrt -L/usr/lib64 -lz make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 16%] Built target rabema_do_search make -f core/apps/razers/CMakeFiles/razers.dir/build.make core/apps/razers/CMakeFiles/razers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/razers /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/razers /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/razers/CMakeFiles/razers.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f core/apps/razers/CMakeFiles/razers.dir/build.make core/apps/razers/CMakeFiles/razers.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 17%] Building CXX object core/apps/razers/CMakeFiles/razers.dir/razers.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/razers && /usr/bin/g++ -DSEQAN_DATE=\"\" -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT core/apps/razers/CMakeFiles/razers.dir/razers.cpp.o -MF CMakeFiles/razers.dir/razers.cpp.o.d -o CMakeFiles/razers.dir/razers.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:45, from /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:49: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:44: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:28, from /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:50: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:62, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:40, from /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:29: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:45:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:54:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:63:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 63 | struct filterI3 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:401:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 401 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:507:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 507 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:78: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:42:48: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public ::std::binary_function < PageBucket, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:57:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:257:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 257 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:372:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 372 | struct insertBucket : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_set.h:373:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:404:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 404 | public::std::binary_function // functor for operator> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:744:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 744 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:760:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 760 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:80: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:854:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 854 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:902:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 902 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:970:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 970 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1039:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1039 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1073:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1073 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1121:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1121 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2093:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2093 | struct _qgramComp : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2112:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2112 | public ::std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:46:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 46 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:85:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 85 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:96: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:98:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 98 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:112:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 112 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:127:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:144:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:154:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:99: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:110:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 110 | public ::std::binary_function < SkewDCStream, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:143:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 143 | public ::std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:100: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:99:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 99 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:118:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:132:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 132 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:154:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:175:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 175 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:185:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 185 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:103: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:57:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:97:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 97 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:141:29: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:109: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:59:42: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:164:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, KasaiOriginal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:312:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 312 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:313:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 313 | LCP[isa - 1] = h; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:379:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 379 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:380:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 380 | LCP[i] = h | mark; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const StringSet&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:483:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 483 | for(TSize hMax = _min(getValueI2((TPair)dec), n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:484:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 484 | LCP[i] = h | mark; | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:113: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h:144:50: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:585:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 585 | public ::std::binary_function< Pair, Pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:128: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In function ‘void seqan::_storeWotdChildren(Index > >&, TSize, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:504:27: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 504 | } else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:506:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 506 | for (TDirSize d = index.sentinelBound - index.sentinelOcc; d != index.sentinelBound; ++d) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:136: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h:149:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 149 | struct RepeatLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:157: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h: In function ‘typename seqan::Iterator >::Type seqan::_upperBoundLcpe(TText&, TSA&, SearchTreeIterator, TQuery&, TDiff_, TDiff_)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1498:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1498 | for(; i && ordEqual(*t, convert(*q)); --i, ++t, ++q) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1501 | if (q == qEnd || t == tEnd || !ordGreater(*t, convert(*q))) { | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:715:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 715 | struct LessRNoGPos : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:747:47: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 747 | struct LessRNoGEndPos : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:779:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 779 | struct LessErrors : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/outputFormat.h:30, from /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:51: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/outputFormat.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/outputFormat.h:126:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 126 | struct LessGPosRNo : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:55: /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:237:47: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 237 | struct LessPairErrors : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp: In function ‘seqan::ArgumentParser::ParseResult extractOptions(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions<>&, seqan::ParamChooserOptions&, seqan::CharString&, const seqan::ArgumentParser&)’: /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:548:10: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 548 | else if (endsWith(tmp, ".gff")) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:551:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 551 | if (isSet(parser, "shape")) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:585:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 585 | if ((getArgumentValueCount(parser, 1) == 0) && (stop = true)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:587:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 587 | if ((options.minClippedLen < 0) && (stop = true)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h: In instantiation of ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal) [with TMatch = ReadMatch; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, Myers > >; TSpec = RazerSSpec<>; SwiftSemiGlobal = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:508:40: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:587:9: note: 508 | if (matchVerify( /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:587:9: note: | ~~~~~~~~~~~^ 509 | (*it).i2, infix(genome, (*it).i2.gBegin, (*it).i2.gEnd), /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:587:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 510 | rseqNo, readSetL, forwardPatternsL, /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:587:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 511 | options, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:587:9: note: | ~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:797:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:587:9: note: 797 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:587:9: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2230:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:587:9: note: 2230 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:587:9: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2303:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:587:9: note: 2303 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:587:9: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:587:9: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:587:9: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:587:9: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:587:9: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:1490:33: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1490 | TGenomeInfixRev infRev(inf); | ^~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:93, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h: In instantiation of ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal) [with TMatch = ReadMatch; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, InfixSegment>, Myers >, Alloc<> >; TSpec = RazerSSpec<>; SwiftSemiGlobal = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:1736:15: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1736 | matchVerify(m, infix(swiftFinder), rseqNo, readSet, forwardPatterns, options, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2303:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 2303 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:1490:33: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1490 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_iterator.h:65, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:86: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:375:13: required from ‘seqan::Finder >::Finder(THaystack&, TRepeatSize, TPeriodSize) [with TRepeatSize = int; TPeriodSize = int; THaystack = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 375 | data_iterator(begin(haystack, Rooted())), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:410:16: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 410 | TSwiftFinderR swiftFinderR(genomeInf, options.repeatLength, 1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:797:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 797 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2230:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 2230 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2292:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 2292 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:147:15: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 147 | : data_container(other_.data_container), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:211:9: required from ‘bool seqan::loadReads(TReadSet&, TNameSet&, const char*, const char*, TRazerSOptions&) [with TReadSet = StringSet >, Owner > >; TNameSet = StringSet > >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 211 | reserve(reads.concat, length(reads.concat), Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:178:17: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 178 | if (!loadReads(readSet, readNames, toCString(readFileNames[0]), toCString(readFileNames[1]), options)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:616:25: required from ‘typename seqan::Iterator >::Type seqan::begin(T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 616 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:375:32: required from ‘seqan::Finder >::Finder(THaystack&, TRepeatSize, TPeriodSize) [with TRepeatSize = int; TPeriodSize = int; THaystack = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 375 | data_iterator(begin(haystack, Rooted())), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:410:16: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 410 | TSwiftFinderR swiftFinderR(genomeInf, options.repeatLength, 1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:797:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 797 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2230:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2230 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2292:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2292 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:532:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 532 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:52: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::container(Finder&) [with THaystack = Segment, Alloc<> >, InfixSegment>; TSpec = Swift > >; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1875:77: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1875 | pattern.finderLength = pattern.params.tabooLength + length(container(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:444:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 444 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:797:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 797 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2230:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2230 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2292:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2292 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:793:42: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 793 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:162: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1876 | _patternInit(pattern, errorRate, minLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:444:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 444 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:797:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 797 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2230:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2230 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2295:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2295 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:77: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = String, Alloc<> >; TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1876 | _patternInit(pattern, errorRate, minLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:1718:13: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1718 | while (find(swiftFinder, swiftPattern, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2295:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2295 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1876 | _patternInit(pattern, errorRate, minLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:444:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 444 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:797:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 797 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2230:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2230 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2298:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2298 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:76: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = String, Alloc<> >; TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1876 | _patternInit(pattern, errorRate, minLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:1718:13: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1718 | while (find(swiftFinder, swiftPattern, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2298:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2298 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::container(Finder&) [with THaystack = Segment, Alloc<> >, InfixSegment>; TSpec = Swift > >; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1875:77: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1875 | pattern.finderLength = pattern.params.tabooLength + length(container(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:444:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 444 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:797:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 797 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2230:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2230 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2303:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2303 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:793:42: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 793 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:92: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:77: required from ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:1490:19: required from ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal) [with TMatch = ReadMatch; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, Myers > >; TSpec = RazerSSpec<>; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1490 | TGenomeInfixRev infRev(inf); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:508:40: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 508 | if (matchVerify( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^ 509 | (*it).i2, infix(genome, (*it).i2.gBegin, (*it).i2.gEnd), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 510 | rseqNo, readSetL, forwardPatternsL, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 511 | options, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:797:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 797 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2230:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2230 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2303:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2303 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:77: required from ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:1491:13: required from ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal) [with TMatch = ReadMatch; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, Myers > >; TSpec = RazerSSpec<>; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1491 | TReadRev readRev(readSet[rseqNo]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:508:40: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 508 | if (matchVerify( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^ 509 | (*it).i2, infix(genome, (*it).i2.gBegin, (*it).i2.gEnd), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 510 | rseqNo, readSetL, forwardPatternsL, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 511 | options, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:797:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 797 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2230:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2230 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2303:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2303 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1876 | _patternInit(pattern, errorRate, minLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:444:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 444 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:797:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 797 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2230:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2230 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2306:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2306 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = String, Alloc<> >; TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1876 | _patternInit(pattern, errorRate, minLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:1718:13: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1718 | while (find(swiftFinder, swiftPattern, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2306:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2306 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1876 | _patternInit(pattern, errorRate, minLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:444:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 444 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:797:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 797 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2230:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2230 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2309:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2309 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = String, Alloc<> >; TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1876 | _patternInit(pattern, errorRate, minLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:1718:13: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1718 | while (find(swiftFinder, swiftPattern, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2309:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2309 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::host(Finder&) [with THaystack = Segment, Alloc<> >, InfixSegment>; TSpec = Swift > >; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1813:36: required from ‘bool seqan::_firstNonRepeatRange(TFinder&, Pattern >&) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1813 | finder.endPos = length(host(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1881:34: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1881 | if (!_firstNonRepeatRange(finder, pattern)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:444:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 444 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:797:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 797 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2230:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2230 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2292:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2292 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:778:42: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 778 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter > seqan::operator+(const Iter >&, TIntegral) [with TContainer = Segment, Alloc<> >, InfixSegment>; TIterator = SimpleType*; TSpec = Tag; TIntegral = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1823:41: required from ‘bool seqan::_firstNonRepeatRange(TFinder&, Pattern >&) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1823 | finder.haystackEnd = begin(tmpHost) + (finder.endPos - length(pattern.shape) + 1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1881:34: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1881 | if (!_firstNonRepeatRange(finder, pattern)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:444:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 444 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:797:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 797 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2230:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2230 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2292:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2292 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:609:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 609 | return Iter >(container(left), hostIterator(left) + right); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter > seqan::operator+(const Iter >&, TIntegral) [with TContainer = Segment, Alloc<> >, InfixSegment>; TIterator = SimpleType*; TSpec = Tag; TIntegral = unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1792:48: required from ‘bool seqan::_nextNonRepeatRange(TFinder&, Pattern >&) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1792 | hostIterator(finder) = begin(host(finder)) + finder.startPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1912:37: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1912 | if (!_nextNonRepeatRange(finder, pattern)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:444:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 444 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:797:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 797 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2230:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2230 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2292:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2292 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:609:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 609 | return Iter >(container(left), hostIterator(left) + right); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::host(Finder&) [with THaystack = Segment, Alloc<> >, InfixSegment>; TSpec = Swift > >; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1813:36: required from ‘bool seqan::_firstNonRepeatRange(TFinder&, Pattern >&) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1813 | finder.endPos = length(host(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1881:34: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1881 | if (!_firstNonRepeatRange(finder, pattern)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:444:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 444 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:797:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 797 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2230:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2230 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2303:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2303 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:778:42: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 778 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:69: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSource = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TValue2 = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; typename Reference > >::Type = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Swift > >; typename Host >::Type = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:391:32: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 391 | TReadSet &readSetL = host(host(swiftPatternL)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:797:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 797 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2230:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2230 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2292:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2292 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: because ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText_ = seqan::StringSet >, seqan::Owner > >; TShapeSpec = seqan::Shape, seqan::UngappedShape<0> >; TSpec = seqan::Tag]’ 368 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSource = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TValue2 = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; typename Reference > >::Type = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Swift > >; typename Host >::Type = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:1685:31: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 1685 | TReadSet &readSet = host(host(swiftPattern)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2292:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 2292 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:81: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: because ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >’ has user-provided ‘seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::StringSet >, seqan::Owner > >; TShapeSpec = seqan::Shape, seqan::UngappedShape<0> >]’ 159 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, UngappedShape<0> >; TDir = String >; TBucketMap = BucketMap; TStepSize = long unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1593:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 1593 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, UngappedShape<0> >; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, UngappedShape<0> >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, UngappedShape<0> >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:1712:17: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 1712 | indexRequire(host(swiftPattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2292:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 2292 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:56, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:71: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, UngappedShape<0> >; TDir = String >; TBucketMap = BucketMap; TStepSize = long unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1604:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1604 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, UngappedShape<0> >; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, UngappedShape<0> >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, UngappedShape<0> >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:1712:17: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1712 | indexRequire(host(swiftPattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2292:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2292 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSource = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TValue2 = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; typename Reference > >::Type = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Swift > >; typename Host >::Type = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:391:32: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 391 | TReadSet &readSetL = host(host(swiftPatternL)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:797:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 797 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2230:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2230 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2295:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2295 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: because ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText_ = seqan::StringSet >, seqan::Owner > >; TShapeSpec = seqan::Shape, seqan::OneGappedShape>; TSpec = seqan::Tag]’ 368 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:333:15: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 333 | class Index > { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSource = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TValue2 = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; typename Reference > >::Type = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Swift > >; typename Host >::Type = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:1685:31: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1685 | TReadSet &readSet = host(host(swiftPattern)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2295:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2295 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: because ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >’ has user-provided ‘seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::StringSet >, seqan::Owner > >; TShapeSpec = seqan::Shape, seqan::OneGappedShape>]’ 159 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:116:15: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 116 | class Index > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, OneGappedShape>; TDir = String >; TBucketMap = BucketMap; TStepSize = long unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1593:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1593 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, OneGappedShape>; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, OneGappedShape>, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, OneGappedShape>, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:1712:17: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1712 | indexRequire(host(swiftPattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2295:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2295 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, OneGappedShape>; TDir = String >; TBucketMap = BucketMap; TStepSize = long unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1604:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1604 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, OneGappedShape>; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, OneGappedShape>, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, OneGappedShape>, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:1712:17: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1712 | indexRequire(host(swiftPattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2295:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2295 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSource = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TValue2 = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; typename Reference > >::Type = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSpec = Swift > >; typename Host >::Type = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:391:32: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 391 | TReadSet &readSetL = host(host(swiftPatternL)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:797:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 797 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2230:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2230 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2298:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2298 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: because ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText_ = seqan::StringSet >, seqan::Owner > >; TShapeSpec = seqan::Shape, seqan::GappedShape > >; TSpec = seqan::Tag]’ 368 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:333:15: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 333 | class Index > { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSource = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TValue2 = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; typename Reference > >::Type = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSpec = Swift > >; typename Host >::Type = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:1685:31: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1685 | TReadSet &readSet = host(host(swiftPattern)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2298:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2298 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: because ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >’ has user-provided ‘seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::StringSet >, seqan::Owner > >; TShapeSpec = seqan::Shape, seqan::GappedShape > >]’ 159 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:116:15: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 116 | class Index > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, GappedShape > >; TDir = String >; TBucketMap = BucketMap; TStepSize = long unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1593:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1593 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, GappedShape > >; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, GappedShape > >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, GappedShape > >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:1712:17: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1712 | indexRequire(host(swiftPattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2298:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2298 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, GappedShape > >; TDir = String >; TBucketMap = BucketMap; TStepSize = long unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1604:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1604 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, GappedShape > >; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, GappedShape > >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, GappedShape > >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:1712:17: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1712 | indexRequire(host(swiftPattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2068:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2068 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2233:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2233 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2298:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2298 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::container(Finder&) [with THaystack = Segment, Alloc<> >, InfixSegment>; TSpec = void; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1724:42: required from ‘bool seqan::find(TFinder&, const Pattern >&, PatternState_ >&) [with TFinder = Finder, Alloc<> >, InfixSegment>, void>; TNeedle = String >; TSpec = FindInfix; THasState = True; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1724 | TSize haystack_length = length(container(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1756:13: required from ‘bool seqan::find(TFinder&, const Pattern >&, PatternState_ >&, int) [with TFinder = Finder, Alloc<> >, InfixSegment>, void>; TNeedle = String >; TSpec = FindInfix; THasState = True; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1756 | return find(finder, pattern, state); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1774:13: required from ‘bool seqan::find(TFinder&, Pattern >&, int) [with TFinder = Finder, Alloc<> >, InfixSegment>, void>; TNeedle = String >; TSpec = FindInfix; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1774 | return find(finder, pattern, pattern, minScore); //static cast /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:1474:13: required from ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal) [with TMatch = ReadMatch; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, Myers > >; TSpec = RazerSSpec<>; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1474 | while (find(myersFinder, myersPattern, minScore)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:508:40: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 508 | if (matchVerify( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^ 509 | (*it).i2, infix(genome, (*it).i2.gBegin, (*it).i2.gEnd), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 510 | rseqNo, readSetL, forwardPatternsL, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 511 | options, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:797:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 797 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2230:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2230 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2303:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2303 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:793:42: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 793 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_endDefault(T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:841:23: required from ‘typename seqan::Iterator >::Type seqan::end(T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 841 | return _endDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_reverse.h:463:24: required from ‘typename seqan::Iterator >, const seqan::Tag >::Type seqan::begin(ModifiedString >&, Tag) [with THost = Segment, Alloc<> >, InfixSegment>; TTagSpec = Rooted_; typename Iterator >, const Tag >::Type = ModifiedIterator, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 463 | TIterator temp_(end(host(me), Rooted())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:440:24: required from ‘seqan::Finder::Finder(THaystack&) [with THaystack = seqan::ModifiedString, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Tag >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 440 | : data_iterator(begin(haystack, Rooted())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:1492:19: required from ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal) [with TMatch = ReadMatch; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, Myers > >; TSpec = RazerSSpec<>; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1492 | TMyersFinderRev myersFinderRev(infRev); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:508:40: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 508 | if (matchVerify( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^ 509 | (*it).i2, infix(genome, (*it).i2.gBegin, (*it).i2.gEnd), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 510 | rseqNo, readSetL, forwardPatternsL, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 511 | options, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:797:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 797 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2230:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2230 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2303:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2303 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:768:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 768 | return TIterator(me, end(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1128:31: required from ‘static void seqan::AssignString_::assign_(TTarget&, TSource&) [with TTarget = seqan::String, seqan::Alloc<> >; TSource = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1128 | arrayConstructCopy(begin(source, Standard()), begin(source, Standard()) + part_length, begin(target, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1176:42: required from ‘void seqan::assign(String&, const TSource&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1176 | AssignString_ >::assign_(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1108:11: required from ‘void seqan::assign(String&, const TSource&) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1108 | assign(target, source, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:173:15: required from ‘seqan::String >& seqan::String >::operator=(const TSource&) [with TSource = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TValue = seqan::SimpleType; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 173 | assign(*this, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/outputFormat.h:918:13: required from ‘void seqan::dumpMatches(TMatches&, const TGenomeNames&, StringSet > >&, std::map, unsigned int> >&, const TReads&, TCounts&, const TReadNames&, CharString, CharString, RazerSOptions&) [with TMatches = String >; TGenomeNames = StringSet > >; TReads = StringSet >, Owner > >; TReadNames = StringSet > >; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 918 | gInf = infix(genomes[(*it).gseqNo], (*it).gBegin, (*it).gEnd); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:241:14: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 241 | dumpMatches(matches, genomeNames, genomeFileNames, gnoToFileMap, readSet, stats, readNames, readFileNames[0], errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1444:21: required from ‘void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1444 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1465:31: required from ‘void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1465 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:849:31: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 849 | arrayConstructMove(old_array, old_array + start, seq_array); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: required from ‘typename seqan::Size >::Type seqan::_clearSpace(String&, TSize, TPosition, TPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long unsigned int; TPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1014 | return ClearSpaceStringBase_ >::_clearSpace_(me, size, pos_begin, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1367:67: required from ‘static void seqan::AppendString_::append_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const seqan::String >; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1367 | typename Size::Type part_length = _clearSpace(target, length(source), target_length, target_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42: required from ‘void seqan::append(String&, const TSource&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1421 | AppendString_ >::append_(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_concat_direct.h:318:11: required from ‘void seqan::appendValue(StringSet > >&, const TString2&, Tag) [with TString = String >; TString2 = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 318 | append(me.concat, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:199:14: required from ‘bool seqan::loadReads(TReadSet&, TNameSet&, const char*, const char*, TRazerSOptions&) [with TReadSet = StringSet >, Owner > >; TNameSet = StringSet > >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 199 | appendValue(reads, seq[0], Generous()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:178:17: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 178 | if (!loadReads(readSet, readNames, toCString(readFileNames[0]), toCString(readFileNames[1]), options)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1589:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1589 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:600:17: required from ‘typename seqan::Iterator::Type>::Type seqan::begin(const T&) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator::Type>::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 600 | return begin(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1792:33: required from ‘bool seqan::_nextNonRepeatRange(TFinder&, Pattern >&) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1792 | hostIterator(finder) = begin(host(finder)) + finder.startPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1912:37: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1912 | if (!_nextNonRepeatRange(finder, pattern)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:444:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 444 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:797:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 797 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2230:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2230 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2292:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2292 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 541 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:61: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_iterator.h: In instantiation of ‘typename seqan::Container >::Type seqan::container(ModifiedIterator&) [with THost = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; TSpec = Tag; typename Container >::Type = ModifiedString, Alloc<> >, InfixSegment>, Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:793:18: required from ‘typename seqan::Parameter_::Type seqan::container(Finder&) [with THaystack = ModifiedString, Alloc<> >, InfixSegment>, Tag >; TSpec = void; typename Parameter_::Type = ModifiedString, Alloc<> >, InfixSegment>, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 793 | return container(hostIterator(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1724:42: required from ‘bool seqan::find(TFinder&, const Pattern >&, PatternState_ >&) [with TFinder = Finder, Alloc<> >, InfixSegment>, Tag >, void>; TNeedle = ModifiedString >, InfixSegment>, Tag >; TSpec = FindPrefix; THasState = True; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1724 | TSize haystack_length = length(container(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1756:13: required from ‘bool seqan::find(TFinder&, const Pattern >&, PatternState_ >&, int) [with TFinder = Finder, Alloc<> >, InfixSegment>, Tag >, void>; TNeedle = ModifiedString >, InfixSegment>, Tag >; TSpec = FindPrefix; THasState = True; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1756 | return find(finder, pattern, state); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1774:13: required from ‘bool seqan::find(TFinder&, Pattern >&, int) [with TFinder = Finder, Alloc<> >, InfixSegment>, Tag >, void>; TNeedle = ModifiedString >, InfixSegment>, Tag >; TSpec = FindPrefix; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1774 | return find(finder, pattern, pattern, minScore); //static cast /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:1497:13: required from ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal) [with TMatch = ReadMatch; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, Myers > >; TSpec = RazerSSpec<>; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1497 | while (find(myersFinderRev, myersPatternRev, maxScore)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:508:40: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 508 | if (matchVerify( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^ 509 | (*it).i2, infix(genome, (*it).i2.gBegin, (*it).i2.gEnd), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 510 | rseqNo, readSetL, forwardPatternsL, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 511 | options, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:797:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 797 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2230:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2230 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2303:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2303 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_iterator.h:294:16: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 294 | TContainer cont(container(host(me))); | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveBackwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1641:30: required from ‘void seqan::arrayMoveBackward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1641 | _arrayMoveBackwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1213:26: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = SimpleType*; TSource1 = SimpleType*; TSource2 = SimpleType*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1213 | arrayMoveBackward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1660:14: required from ‘void seqan::_arrayClearSpacePointer(TValue*, size_t, size_t, size_t, const True&) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1660 | arrayMove(array_begin + keep_from, array_begin + array_length, array_begin + move_to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1681:28: required from ‘void seqan::arrayClearSpace(TValue*, size_t, size_t, size_t) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1681 | _arrayClearSpacePointer(array_begin, array_length, keep_from, move_to, typename IsSimple::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:856:28: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1367:67: required from ‘static void seqan::AppendString_::append_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const seqan::String >; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1367 | typename Size::Type part_length = _clearSpace(target, length(source), target_length, target_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42: required from ‘void seqan::append(String&, const TSource&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1421 | AppendString_ >::append_(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_concat_direct.h:318:11: required from ‘void seqan::appendValue(StringSet > >&, const TString2&, Tag) [with TString = String >; TString2 = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 318 | append(me.concat, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:199:14: required from ‘bool seqan::loadReads(TReadSet&, TNameSet&, const char*, const char*, TRazerSOptions&) [with TReadSet = StringSet >, Owner > >; TNameSet = StringSet > >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 199 | appendValue(reads, seq[0], Generous()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:178:17: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 178 | if (!loadReads(readSet, readNames, toCString(readFileNames[0]), toCString(readFileNames[1]), options)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1621:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1621 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1925:45: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2153:18: required from ‘typename seqan::Size::Type seqan::resize(T&, TSize, const TValue&) [with T = String >; TSize = int; TValue = SimpleType; typename Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2153 | return resize(me, new_length, val, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:484:9: required from ‘void seqan::initPatterns(TStateString&, const TShape&, int, const TLogErrorDistr&, TDistance, bool) [with TStateString = String, double>, Alloc<> >; TShape = String >; TLogErrorDistr = String; TDistance = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 484 | resize(pattern, span, (ErrorAlphabet)SEQAN_MATCH); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:1118:14: required from ‘void seqan::qgramFilteringSensitivity(TSensitivityMatrix&, const TShape&, TPatternSize, TErrors, TThresh, TDistance, ThreshExact, const TErrorDist&) [with TSensitivityMatrix = String; TShape = Shape, GappedShape > >; TPatternSize = unsigned int; TErrors = unsigned int; TThresh = unsigned int; TDistance = Tag; TErrorDist = String; ThreshExact = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1118 | initPatterns(states, bitString, errors, logErrorDistribution, dist, true); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/paramChooser.h:741:42: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 741 | qgramFilteringSensitivity(sensMat, shape, totalN, maxErrors - 1, maxT - 1, HammingDistance(), ThreshExact(), logErrorDistribution); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/paramChooser.h:1310:30: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1310 | makeSelectedStatsFile(errorDistribution, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:679:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 679 | if (!chooseParams(options,pm_options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, UngappedShape<0> >; TDir = String >; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1593:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1593 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, UngappedShape<0> >; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, UngappedShape<0> >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, UngappedShape<0> >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:444:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 444 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:797:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 797 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2230:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2230 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2292:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2292 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, UngappedShape<0> >; TDir = String >; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1604:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1604 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, UngappedShape<0> >; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, UngappedShape<0> >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, UngappedShape<0> >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:444:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 444 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:797:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 797 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2230:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2230 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2292:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2292 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, OneGappedShape>; TDir = String >; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1593:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1593 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, OneGappedShape>; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, OneGappedShape>, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, OneGappedShape>, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:444:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 444 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:797:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 797 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2230:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2230 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2295:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2295 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, OneGappedShape>; TDir = String >; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1604:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1604 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, OneGappedShape>; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, OneGappedShape>, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, OneGappedShape>, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:444:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 444 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:797:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 797 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2230:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2230 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2295:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2295 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, GappedShape > >; TDir = String >; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1593:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1593 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, GappedShape > >; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, GappedShape > >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, GappedShape > >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:444:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 444 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:797:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 797 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2230:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2230 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2298:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2298 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, GappedShape > >; TDir = String >; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1604:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1604 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, GappedShape > >; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, GappedShape > >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, GappedShape > >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:444:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 444 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:797:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 797 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2230:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2230 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2298:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2298 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1444:21: required from ‘void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1444 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1465:31: required from ‘void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1465 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:849:31: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 849 | arrayConstructMove(old_array, old_array + start, seq_array); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: required from ‘typename seqan::Size >::Type seqan::_clearSpace(String&, TSize, TPosition, TPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long unsigned int; TPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1014 | return ClearSpaceStringBase_ >::_clearSpace_(me, size, pos_begin, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1048:30: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1845:16: required from ‘void seqan::insertValue(T&, TPosition, const TValue&) [with T = String >; TPosition = int; TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1845 | insertValue(me, pos, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:511:16: required from ‘void seqan::initPatterns(TStateString&, const TShape&, int, const TLogErrorDistr&, TDistance, bool) [with TStateString = String, double>, Alloc<> >; TShape = String >; TLogErrorDistr = String; TDistance = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 511 | insertValue(pattern, mods[i].i1, (ErrorAlphabet)SEQAN_INSERT); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:1118:14: required from ‘void seqan::qgramFilteringSensitivity(TSensitivityMatrix&, const TShape&, TPatternSize, TErrors, TThresh, TDistance, ThreshExact, const TErrorDist&) [with TSensitivityMatrix = String; TShape = Shape, GappedShape > >; TPatternSize = unsigned int; TErrors = unsigned int; TThresh = unsigned int; TDistance = Tag; TErrorDist = String; ThreshExact = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1118 | initPatterns(states, bitString, errors, logErrorDistribution, dist, true); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/paramChooser.h:741:42: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 741 | qgramFilteringSensitivity(sensMat, shape, totalN, maxErrors - 1, maxT - 1, HammingDistance(), ThreshExact(), logErrorDistribution); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/paramChooser.h:1310:30: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1310 | makeSelectedStatsFile(errorDistribution, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:679:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 679 | if (!chooseParams(options,pm_options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1589:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1589 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:606:19: required from ‘typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, InfixSegment>, Tag >; TValue = Segment, Alloc<> >, InfixSegment>; typename Value::Type = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 606 | valueConstruct(ret, data); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:735:42: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Segment, Alloc<> >, InfixSegment>; TValue2 = const Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 735 | me.data_value = _holderAllocateObject(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:1018:15: required from ‘void seqan::assignValue(Holder >&, const TSource&) [with TValue = Segment, Alloc<> >, InfixSegment>; TSource = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1018 | create(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:153:20: required from ‘seqan::Holder >::Holder(const THostValue&) [with TValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; THostValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 153 | assignValue(*this, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:267:4: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:410:16: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 410 | TSwiftFinderR swiftFinderR(genomeInf, options.repeatLength, 1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers_matepairs.h:797:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 797 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2230:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2230 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.h:2292:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2292 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:218:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 218 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:699:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 699 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveBackwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1641:30: required from ‘void seqan::arrayMoveBackward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1641 | _arrayMoveBackwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1213:26: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = SimpleType*; TSource1 = SimpleType*; TSource2 = SimpleType*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1213 | arrayMoveBackward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1660:14: required from ‘void seqan::_arrayClearSpacePointer(TValue*, size_t, size_t, size_t, const True&) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1660 | arrayMove(array_begin + keep_from, array_begin + array_length, array_begin + move_to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1681:28: required from ‘void seqan::arrayClearSpace(TValue*, size_t, size_t, size_t) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1681 | _arrayClearSpacePointer(array_begin, array_length, keep_from, move_to, typename IsSimple::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:856:28: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 856 | arrayClearSpace(seq_array + start, old_length - start, removed_size, size); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1845:16: required from ‘void seqan::insertValue(T&, TPosition, const TValue&) [with T = String >; TPosition = int; TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1845 | insertValue(me, pos, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:511:16: required from ‘void seqan::initPatterns(TStateString&, const TShape&, int, const TLogErrorDistr&, TDistance, bool) [with TStateString = String, double>, Alloc<> >; TShape = String >; TLogErrorDistr = String; TDistance = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 511 | insertValue(pattern, mods[i].i1, (ErrorAlphabet)SEQAN_INSERT); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:1118:14: required from ‘void seqan::qgramFilteringSensitivity(TSensitivityMatrix&, const TShape&, TPatternSize, TErrors, TThresh, TDistance, ThreshExact, const TErrorDist&) [with TSensitivityMatrix = String; TShape = Shape, GappedShape > >; TPatternSize = unsigned int; TErrors = unsigned int; TThresh = unsigned int; TDistance = Tag; TErrorDist = String; ThreshExact = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1118 | initPatterns(states, bitString, errors, logErrorDistribution, dist, true); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/paramChooser.h:741:42: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 741 | qgramFilteringSensitivity(sensMat, shape, totalN, maxErrors - 1, maxT - 1, HammingDistance(), ThreshExact(), logErrorDistribution); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/paramChooser.h:1310:30: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1310 | makeSelectedStatsFile(errorDistribution, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:679:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 679 | if (!chooseParams(options,pm_options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1621:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1621 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /usr/include/c++/14/string:51: In function ‘std::__copy_move::__copy_m(char const*, char const*, char*)char*’, inlined from ‘std::__copy_move_a2(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:507:30, inlined from ‘std::__copy_move_a1(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:534:42, inlined from ‘std::__copy_move_a(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:541:31, inlined from ‘std::copy(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:637:7, inlined from ‘seqan::_arrayCopyForwardDefault(char const*, char const*, char*)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:855:16, inlined from ‘seqan::arrayCopyForward(char const*, char const*, char*)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:865:29, inlined from ‘seqan::_arrayConstructCopyPointer(char const*, char const*, char*, seqan::True)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21, inlined from ‘seqan::arrayConstructCopy(char const*, char const*, char*)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31, inlined from ‘seqan::AppendString_ >::append_ >, char const>(seqan::String >&, char const&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1368:31, inlined from ‘seqan::append, char, seqan::TagGenerous_>(seqan::String >&, char const&, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42, inlined from ‘seqan::append >, char>(seqan::String >&, char&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1608:11, inlined from ‘seqan::_parse_readShape >, char>(std::basic_fstream >&, char&, seqan::String >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/paramChooser.h:861:15, inlined from ‘seqan::parseGappedParams >, seqan::RazerSSpec >(seqan::RazerSOptions >&, std::basic_fstream >&, seqan::ParamChooserOptions&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/paramChooser.h:1068:25, inlined from ‘seqan::chooseParams >(seqan::RazerSOptions >&, seqan::ParamChooserOptions&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/paramChooser.h:1342:26: /usr/include/c++/14/bits/stl_algobase.h:438:30: warning: ‘memmove’ forming offset 1 is out of the bounds [0, 1] of object ‘c’ with type ‘char’ [-Warray-bounds=] 438 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/razers.cpp:52: /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/paramChooser.h: In function ‘seqan::chooseParams >(seqan::RazerSOptions >&, seqan::ParamChooserOptions&)bool’: /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/paramChooser.h:1043:10: note: ‘c’ declared here 1043 | char c = _streamGet(file); | ^ [ 17%] Building CXX object core/apps/razers/CMakeFiles/razers.dir/param_tabs.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/razers && /usr/bin/g++ -DSEQAN_DATE=\"\" -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT core/apps/razers/CMakeFiles/razers.dir/param_tabs.cpp.o -MF CMakeFiles/razers.dir/param_tabs.cpp.o.d -o CMakeFiles/razers.dir/param_tabs.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/core/apps/razers/param_tabs.cpp [ 19%] Linking CXX executable ../../../bin/razers cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/razers && /usr/bin/cmake -E cmake_link_script CMakeFiles/razers.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/razers.dir/razers.cpp.o CMakeFiles/razers.dir/param_tabs.cpp.o -o ../../../bin/razers -lrt make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 19%] Built target razers make -f core/apps/razers2/CMakeFiles/razers2.dir/build.make core/apps/razers2/CMakeFiles/razers2.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2 /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/razers2 /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/razers2/CMakeFiles/razers2.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f core/apps/razers2/CMakeFiles/razers2.dir/build.make core/apps/razers2/CMakeFiles/razers2.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 19%] Building CXX object core/apps/razers2/CMakeFiles/razers2.dir/razers.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/razers2 && /usr/bin/g++ -DSEQAN_DATE=\"\" -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT core/apps/razers2/CMakeFiles/razers2.dir/razers.cpp.o -MF CMakeFiles/razers2.dir/razers.cpp.o.d -o CMakeFiles/razers2.dir/razers.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:45, from /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:43: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:44: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:28, from /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:44: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:62, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:40, from /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:29: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:45:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:54:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:63:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 63 | struct filterI3 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:401:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 401 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:507:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 507 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:78: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:42:48: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public ::std::binary_function < PageBucket, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:57:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:257:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 257 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:372:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 372 | struct insertBucket : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_set.h:373:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:404:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 404 | public::std::binary_function // functor for operator> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:744:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 744 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:760:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 760 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:80: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:854:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 854 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:902:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 902 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:970:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 970 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1039:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1039 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1073:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1073 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1121:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1121 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2093:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2093 | struct _qgramComp : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2112:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2112 | public ::std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:46:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 46 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:85:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 85 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:96: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:98:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 98 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:112:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 112 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:127:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:144:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:154:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:99: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:110:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 110 | public ::std::binary_function < SkewDCStream, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:143:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 143 | public ::std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:100: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:99:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 99 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:118:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:132:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 132 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:154:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:175:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 175 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:185:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 185 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:103: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:57:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:97:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 97 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:141:29: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:109: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:59:42: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:164:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, KasaiOriginal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:312:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 312 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:313:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 313 | LCP[isa - 1] = h; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:379:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 379 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:380:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 380 | LCP[i] = h | mark; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const StringSet&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:483:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 483 | for(TSize hMax = _min(getValueI2((TPair)dec), n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:484:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 484 | LCP[i] = h | mark; | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:113: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h:144:50: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:585:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 585 | public ::std::binary_function< Pair, Pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:128: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In function ‘void seqan::_storeWotdChildren(Index > >&, TSize, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:504:27: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 504 | } else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:506:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 506 | for (TDirSize d = index.sentinelBound - index.sentinelOcc; d != index.sentinelBound; ++d) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:136: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h:149:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 149 | struct RepeatLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:157: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h: In function ‘typename seqan::Iterator >::Type seqan::_upperBoundLcpe(TText&, TSA&, SearchTreeIterator, TQuery&, TDiff_, TDiff_)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1498:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1498 | for(; i && ordEqual(*t, convert(*q)); --i, ++t, ++q) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1501 | if (q == qEnd || t == tEnd || !ordGreater(*t, convert(*q))) { | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:488:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 488 | public ::std::binary_function < typename Value::Type, typename Value::Type, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:535:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function < typename Value::Type, typename Value::Type, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:583:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 583 | public ::std::binary_function < typename Value::Type, typename Value::Type, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:630:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 630 | public ::std::binary_function < typename Value::Type, typename Value::Type, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:45: /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/outputFormat.h:127:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 127 | public ::std::binary_function < typename Value::Type, typename Value::Type, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/outputFormat.h:169:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 169 | public ::std::binary_function < typename Value::Type, typename Value::Type, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:51: /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:228:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 228 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp: In function ‘seqan::ArgumentParser::ParseResult extractOptions(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions<>&, seqan::ParamChooserOptions&, seqan::CharString&, const seqan::ArgumentParser&)’: /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:492:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 492 | if (!isSet(parser, "read-naming") && options.outputFormat == 4) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:495:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 495 | if (isSet(parser, "shape")) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:529:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 529 | if ((getArgumentValueCount(parser, 1) == 0) && (stop = true)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:532:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 532 | options.errorRate = (100.0 - options.errorRate) / 100.0; | ^~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_iterator.h:65, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:86: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:600:17: required from ‘typename seqan::Iterator::Type>::Type seqan::begin(const T&) [with T = Segment >, InfixSegment>; typename Iterator::Type>::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:532:9: note: 600 | return begin(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:532:9: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io.h:971:31: required from ‘int seqan::write(TFile&, FragmentStore&, Amos) [with TFile = std::basic_ofstream; TSpec = void; TConfig = FragmentStoreConfig; Amos = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:532:9: note: 971 | TSeqIter seqIt = begin(value(fragStore.readSeqStore, idCount)); /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:532:9: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/outputFormat.h:1097:9: required from ‘void seqan::dumpMatches(FragmentStore&, StringSet > >&, String&, CharString, CharString, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:532:9: note: 1097 | write(file, store, Amos()); /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:532:9: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:220:14: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:532:9: note: 220 | dumpMatches(store, genomeFileNames, gnoToFileMap, readFileNames[0], errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:532:9: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:532:9: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:532:9: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:147:15: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 147 | : data_container(other_.data_container), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:93, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h: In instantiation of ‘bool seqan::matchVerify(TMatchVerifier&, Segment, unsigned int, TReadSet&, SwiftSemiGlobal) [with TMatchVerifier = MatchVerifier, RazerSOptions<>, String >, InfixSegment>, Myers >, Alloc<> >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > > >; TGenome = String, Alloc<> >; TReadSet = StringSet >, InfixSegment>, Owner<> >; SwiftSemiGlobal = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:542:22: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 542 | if (matchVerify(verifierL, infix(genome, (TSignedGPos)(*it).i2.beginPos, (TSignedGPos)(*it).i2.endPos), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 543 | matePairId, readSetL, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1515:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1515 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1000:22: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1000 | TGenomeInfix origInf(inf); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1068:57: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1068 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1128:41: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1128 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h: In instantiation of ‘bool seqan::matchVerify(TMatchVerifier&, Segment, unsigned int, TReadSet&, SwiftSemiGlobal) [with TMatchVerifier = MatchVerifier, RazerSOptions<>, String >, Myers > >, Pattern >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > > >; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; SwiftSemiGlobal = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1203:15: required from ‘void seqan::mapSingleReads(TFragmentStore&, TGenome&, unsigned int, Pattern >&, TPreprocessing&, char, TRazerSOptions&) [with TFragmentStore = FragmentStore<>; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, Myers > >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1203 | matchVerify(verifier, infix(swiftFinder), verifier.m.readId, readSet, TSwiftSpec()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1321:19: required from ‘int seqan::mapSingleReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1321 | mapSingleReads(store, genome, gseqNo, swiftPattern, forwardPatterns, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1459:24: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1459 | return mapSingleReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1515:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1515 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1000:22: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1000 | TGenomeInfix origInf(inf); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1068:57: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1068 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1128:41: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1128 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h: In instantiation of ‘bool seqan::matchVerify(TMatchVerifier&, Segment, unsigned int, TReadSet&, SwiftSemiGlobal) [with TMatchVerifier = MatchVerifier, RazerSOptions<>, String >, InfixSegment>, Myers >, Alloc<> >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Swift > > > >; TGenome = String, Alloc<> >; TReadSet = StringSet >, InfixSegment>, Owner<> >; SwiftSemiGlobal = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:542:22: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 542 | if (matchVerify(verifierL, infix(genome, (TSignedGPos)(*it).i2.beginPos, (TSignedGPos)(*it).i2.endPos), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 543 | matePairId, readSetL, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1518:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1518 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1000:22: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1000 | TGenomeInfix origInf(inf); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1068:57: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1068 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1128:41: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1128 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h: In instantiation of ‘bool seqan::matchVerify(TMatchVerifier&, Segment, unsigned int, TReadSet&, SwiftSemiGlobal) [with TMatchVerifier = MatchVerifier, RazerSOptions<>, String >, Myers > >, Pattern >, Owner > >, IndexQGram, OneGappedShape>, Tag > >, Swift > > > >; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; SwiftSemiGlobal = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1203:15: required from ‘void seqan::mapSingleReads(TFragmentStore&, TGenome&, unsigned int, Pattern >&, TPreprocessing&, char, TRazerSOptions&) [with TFragmentStore = FragmentStore<>; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, Myers > >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1203 | matchVerify(verifier, infix(swiftFinder), verifier.m.readId, readSet, TSwiftSpec()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1321:19: required from ‘int seqan::mapSingleReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1321 | mapSingleReads(store, genome, gseqNo, swiftPattern, forwardPatterns, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1459:24: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1459 | return mapSingleReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1518:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1518 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1000:22: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1000 | TGenomeInfix origInf(inf); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1068:57: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1068 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1128:41: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1128 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h: In instantiation of ‘bool seqan::matchVerify(TMatchVerifier&, Segment, unsigned int, TReadSet&, SwiftSemiGlobal) [with TMatchVerifier = MatchVerifier, RazerSOptions<>, String >, InfixSegment>, Myers >, Alloc<> >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > > >; TGenome = String, Alloc<> >; TReadSet = StringSet >, InfixSegment>, Owner<> >; SwiftSemiGlobal = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:542:22: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 542 | if (matchVerify(verifierL, infix(genome, (TSignedGPos)(*it).i2.beginPos, (TSignedGPos)(*it).i2.endPos), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 543 | matePairId, readSetL, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1521:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1521 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1000:22: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1000 | TGenomeInfix origInf(inf); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1068:57: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1068 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1128:41: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1128 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h: In instantiation of ‘bool seqan::matchVerify(TMatchVerifier&, Segment, unsigned int, TReadSet&, SwiftSemiGlobal) [with TMatchVerifier = MatchVerifier, RazerSOptions<>, String >, Myers > >, Pattern >, Owner > >, IndexQGram, GappedShape > >, Tag > >, Swift > > > >; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; SwiftSemiGlobal = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1203:15: required from ‘void seqan::mapSingleReads(TFragmentStore&, TGenome&, unsigned int, Pattern >&, TPreprocessing&, char, TRazerSOptions&) [with TFragmentStore = FragmentStore<>; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, Myers > >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1203 | matchVerify(verifier, infix(swiftFinder), verifier.m.readId, readSet, TSwiftSpec()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1321:19: required from ‘int seqan::mapSingleReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1321 | mapSingleReads(store, genome, gseqNo, swiftPattern, forwardPatterns, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1459:24: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1459 | return mapSingleReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1521:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1521 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1000:22: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1000 | TGenomeInfix origInf(inf); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1068:57: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1068 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1128:41: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1128 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:600:17: required from ‘typename seqan::Iterator::Type>::Type seqan::begin(const T&) [with T = Segment >, InfixSegment>; typename Iterator::Type>::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 600 | return begin(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io.h:971:31: required from ‘int seqan::write(TFile&, FragmentStore&, Amos) [with TFile = std::basic_ofstream; TSpec = void; TConfig = FragmentStoreConfig; Amos = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 971 | TSeqIter seqIt = begin(value(fragStore.readSeqStore, idCount)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/outputFormat.h:1097:9: required from ‘void seqan::dumpMatches(FragmentStore&, StringSet > >&, String&, CharString, CharString, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1097 | write(file, store, Amos()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:220:14: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 220 | dumpMatches(store, genomeFileNames, gnoToFileMap, readFileNames[0], errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 541 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_endDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:850:23: required from ‘typename seqan::Iterator >::Type seqan::end(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 850 | return _endDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:832:15: required from ‘typename seqan::Iterator::Type>::Type seqan::end(const T&) [with T = Segment >, InfixSegment>; typename Iterator::Type>::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 832 | return end(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io.h:972:32: required from ‘int seqan::write(TFile&, FragmentStore&, Amos) [with TFile = std::basic_ofstream; TSpec = void; TConfig = FragmentStoreConfig; Amos = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 972 | TSeqIter seqItEnd = end(value(fragStore.readSeqStore, idCount)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/outputFormat.h:1097:9: required from ‘void seqan::dumpMatches(FragmentStore&, StringSet > >&, String&, CharString, CharString, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1097 | write(file, store, Amos()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:220:14: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 220 | dumpMatches(store, genomeFileNames, gnoToFileMap, readFileNames[0], errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:777:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 777 | return TIterator(me, end(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:375:13: required from ‘seqan::Finder >::Finder(THaystack&, TRepeatSize, TPeriodSize) [with TRepeatSize = int; TPeriodSize = int; THaystack = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 375 | data_iterator(begin(haystack, Rooted())), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:460:16: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 460 | TSwiftFinderR swiftFinderR(genomeInf, options.repeatLength, 1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1504:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1504 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:147:15: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 147 | : data_container(other_.data_container), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:69, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, const TSource&) [with TTarget = Triple, void>, AlignQualityStoreElement, void>; TSource = Triple, void>, AlignQualityStoreElement, void>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_dequeue.h:344:8: required from ‘void seqan::pushBack(Dequeue&, const TValue&) [with TValue = Triple, void>, AlignQualityStoreElement, void>; TSpec = Alloc<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 344 | assign(*me.data_back, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:510:14: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 510 | pushBack(fifo, fL); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1504:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1504 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:142:12: warning: implicitly-declared ‘seqan::Triple, void>, seqan::AlignQualityStoreElement, void>& seqan::Triple, void>, seqan::AlignQualityStoreElement, void>::operator=(const seqan::Triple, void>, seqan::AlignQualityStoreElement, void>&)’ is deprecated [-Wdeprecated-copy] 142 | target = source; | ~~~~~~~^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:57, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:71: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_base.h:162:12: note: because ‘seqan::Triple, void>, seqan::AlignQualityStoreElement, void>’ has user-provided ‘seqan::Triple::Triple(const seqan::Triple&) [with T1 = long int; T2 = seqan::AlignedReadStoreElement, void>; T3 = seqan::AlignQualityStoreElement; TSpec = void]’ 162 | inline Triple(Triple const & _p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:600:17: required from ‘typename seqan::Iterator::Type>::Type seqan::begin(const T&) [with T = Segment >, InfixSegment>; typename Iterator::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_base.h:162:12: note: 600 | return begin(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_base.h:162:12: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1013:50: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam, const TAlignFunctor&) [with TFile = std::basic_ofstream; TSpec = void; TConfig = FragmentStoreConfig; TAlignFunctor = Nothing; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_base.h:162:12: note: 1013 | for (TReadNameIterator it = begin(store.readNameStore[readId]); it != end(store.readNameStore[readId]); ++it) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_base.h:162:12: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1210:25: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam) [with TFile = std::basic_ofstream; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_base.h:162:12: note: 1210 | _writeAlignments(target, store, Sam(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_base.h:162:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1239:25: required from ‘void seqan::write(TFile&, FragmentStore&, Sam) [with TFile = std::basic_ofstream; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_base.h:162:12: note: 1239 | _writeAlignments(target, store, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_base.h:162:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/outputFormat.h:1092:9: required from ‘void seqan::dumpMatches(FragmentStore&, StringSet > >&, String&, CharString, CharString, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_base.h:162:12: note: 1092 | write(file, store, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_base.h:162:12: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:220:14: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_base.h:162:12: note: 220 | dumpMatches(store, genomeFileNames, gnoToFileMap, readFileNames[0], errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_base.h:162:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_base.h:162:12: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_base.h:162:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:147:15: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 147 | : data_container(other_.data_container), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:201:9: required from ‘bool seqan::loadReads(FragmentStore&, const char*, const char*, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 201 | reserve(store.readSeqStore.concat, length(store.readSeqStore.concat), Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:167:17: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 167 | if (!loadReads(store, toCString(readFileNames[0]), toCString(readFileNames[1]), options)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:616:25: required from ‘typename seqan::Iterator >::Type seqan::begin(T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 616 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:375:32: required from ‘seqan::Finder >::Finder(THaystack&, TRepeatSize, TPeriodSize) [with TRepeatSize = int; TPeriodSize = int; THaystack = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 375 | data_iterator(begin(haystack, Rooted())), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:460:16: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 460 | TSwiftFinderR swiftFinderR(genomeInf, options.repeatLength, 1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1504:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1504 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:532:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 532 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:52: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::container(Finder&) [with THaystack = Segment, Alloc<> >, InfixSegment>; TSpec = Swift > >; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1875:77: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1875 | pattern.finderLength = pattern.params.tabooLength + length(container(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:477:13: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 477 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1504:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1504 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:793:42: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 793 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:162: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1876 | _patternInit(pattern, errorRate, minLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:477:13: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 477 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1507:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1507 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:77: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = String, Alloc<> >; TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1876 | _patternInit(pattern, errorRate, minLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1199:13: required from ‘void seqan::mapSingleReads(TFragmentStore&, TGenome&, unsigned int, Pattern >&, TPreprocessing&, char, TRazerSOptions&) [with TFragmentStore = FragmentStore<>; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, Myers > >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1199 | while (find(swiftFinder, swiftPattern, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1321:19: required from ‘int seqan::mapSingleReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1321 | mapSingleReads(store, genome, gseqNo, swiftPattern, forwardPatterns, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1459:24: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1459 | return mapSingleReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1507:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1507 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1876 | _patternInit(pattern, errorRate, minLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:477:13: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 477 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1510:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1510 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:76: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = String, Alloc<> >; TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1876 | _patternInit(pattern, errorRate, minLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1199:13: required from ‘void seqan::mapSingleReads(TFragmentStore&, TGenome&, unsigned int, Pattern >&, TPreprocessing&, char, TRazerSOptions&) [with TFragmentStore = FragmentStore<>; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, Myers > >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1199 | while (find(swiftFinder, swiftPattern, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1321:19: required from ‘int seqan::mapSingleReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1321 | mapSingleReads(store, genome, gseqNo, swiftPattern, forwardPatterns, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1459:24: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1459 | return mapSingleReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1510:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1510 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::container(Finder&) [with THaystack = Segment, Alloc<> >, InfixSegment>; TSpec = Swift > >; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1875:77: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1875 | pattern.finderLength = pattern.params.tabooLength + length(container(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:477:13: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 477 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1515:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1515 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:793:42: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 793 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:92: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:77: required from ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1049:21: required from ‘bool seqan::matchVerify(TMatchVerifier&, Segment, unsigned int, TReadSet&, SwiftSemiGlobal) [with TMatchVerifier = MatchVerifier, RazerSOptions<>, String >, InfixSegment>, Myers >, Alloc<> >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > > >; TGenome = String, Alloc<> >; TReadSet = StringSet >, InfixSegment>, Owner<> >; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1049 | TReadPrefixRev readRev(prefix(readSet[readId], ndlLength)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:542:22: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 542 | if (matchVerify(verifierL, infix(genome, (TSignedGPos)(*it).i2.beginPos, (TSignedGPos)(*it).i2.endPos), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 543 | matePairId, readSetL, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1515:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1515 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:77: required from ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1068:22: required from ‘bool seqan::matchVerify(TMatchVerifier&, Segment, unsigned int, TReadSet&, SwiftSemiGlobal) [with TMatchVerifier = MatchVerifier, RazerSOptions<>, String >, InfixSegment>, Myers >, Alloc<> >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > > >; TGenome = String, Alloc<> >; TReadSet = StringSet >, InfixSegment>, Owner<> >; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1068 | TGenomeInfixRev infRev(inf); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:542:22: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 542 | if (matchVerify(verifierL, infix(genome, (TSignedGPos)(*it).i2.beginPos, (TSignedGPos)(*it).i2.endPos), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 543 | matePairId, readSetL, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1515:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1515 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1876 | _patternInit(pattern, errorRate, minLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:477:13: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 477 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1518:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1518 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = String, Alloc<> >; TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1876 | _patternInit(pattern, errorRate, minLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1199:13: required from ‘void seqan::mapSingleReads(TFragmentStore&, TGenome&, unsigned int, Pattern >&, TPreprocessing&, char, TRazerSOptions&) [with TFragmentStore = FragmentStore<>; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, Myers > >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1199 | while (find(swiftFinder, swiftPattern, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1321:19: required from ‘int seqan::mapSingleReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1321 | mapSingleReads(store, genome, gseqNo, swiftPattern, forwardPatterns, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1459:24: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1459 | return mapSingleReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1518:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1518 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1876 | _patternInit(pattern, errorRate, minLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:477:13: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 477 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1521:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1521 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = String, Alloc<> >; TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1876 | _patternInit(pattern, errorRate, minLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1199:13: required from ‘void seqan::mapSingleReads(TFragmentStore&, TGenome&, unsigned int, Pattern >&, TPreprocessing&, char, TRazerSOptions&) [with TFragmentStore = FragmentStore<>; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, Myers > >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1199 | while (find(swiftFinder, swiftPattern, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1321:19: required from ‘int seqan::mapSingleReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1321 | mapSingleReads(store, genome, gseqNo, swiftPattern, forwardPatterns, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1459:24: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1459 | return mapSingleReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1521:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1521 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:81: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h: In instantiation of ‘seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1189:28: required from ‘typename seqan::Iterator >::Type seqan::iter(T&, TPos, Tag) [with T = Gaps >, AnchorGaps, Alloc<> > > >; TPos = long int; TTag = Rooted_; typename Iterator >::Type = Iter >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1189 | return begin(me, tag_) + pos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1169:16: required from ‘typename seqan::Iterator::Type>::Type seqan::iter(T&, TPos) [with T = Gaps >, AnchorGaps, Alloc<> > > >; TPos = long int; typename Iterator::Type>::Type = Iter >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1169 | return iter(me, pos, typename DefaultGetIteratorSpec::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_anchor.h:465:20: required from ‘void seqan::insertGaps(Gaps >&, TPosition, TCount) [with TSequence = String >; TGapAnchors = String, Alloc<> >; TPosition = long int; TCount = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 465 | TIter it = iter(gaps, clippedViewPos); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_base.h:628:15: required from ‘void seqan::insertGap(Gaps&, TPosition) [with TSequence = String >; TSpec = AnchorGaps, Alloc<> > >; TPosition = long int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 628 | insertGaps(gaps, clippedViewPos, 1u); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2582:18: required from ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&) [with TSpec = void; TConfig = FragmentStoreConfig; TScore = Score >; TShrinkMatches = False]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2582 | insertGap(gaps, insPos - rBegin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/outputFormat.h:1053:48: required from ‘void seqan::dumpMatches(FragmentStore&, StringSet > >&, String&, CharString, CharString, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1053 | convertMatchesToGlobalAlignment(store, scoreType, False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:220:14: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 220 | dumpMatches(store, genomeFileNames, gnoToFileMap, readFileNames[0], errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:742:58: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 742 | Iter > > result = lhs; | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:744:12: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 744 | return result; | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:600:17: required from ‘typename seqan::Iterator::Type>::Type seqan::begin(const T&) [with T = Segment >, InfixSegment>; typename Iterator::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 600 | return begin(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1013:50: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam, const TAlignFunctor&) [with TFile = std::basic_ofstream; TSpec = void; TConfig = FragmentStoreConfig; TAlignFunctor = Nothing; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1013 | for (TReadNameIterator it = begin(store.readNameStore[readId]); it != end(store.readNameStore[readId]); ++it) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1210:25: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam) [with TFile = std::basic_ofstream; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1210 | _writeAlignments(target, store, Sam(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1239:25: required from ‘void seqan::write(TFile&, FragmentStore&, Sam) [with TFile = std::basic_ofstream; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1239 | _writeAlignments(target, store, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/outputFormat.h:1092:9: required from ‘void seqan::dumpMatches(FragmentStore&, StringSet > >&, String&, CharString, CharString, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1092 | write(file, store, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:220:14: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 220 | dumpMatches(store, genomeFileNames, gnoToFileMap, readFileNames[0], errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 541 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_endDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:850:23: required from ‘typename seqan::Iterator >::Type seqan::end(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 850 | return _endDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:832:15: required from ‘typename seqan::Iterator::Type>::Type seqan::end(const T&) [with T = Segment >, InfixSegment>; typename Iterator::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 832 | return end(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1013:90: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam, const TAlignFunctor&) [with TFile = std::basic_ofstream; TSpec = void; TConfig = FragmentStoreConfig; TAlignFunctor = Nothing; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1013 | for (TReadNameIterator it = begin(store.readNameStore[readId]); it != end(store.readNameStore[readId]); ++it) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1210:25: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam) [with TFile = std::basic_ofstream; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1210 | _writeAlignments(target, store, Sam(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1239:25: required from ‘void seqan::write(TFile&, FragmentStore&, Sam) [with TFile = std::basic_ofstream; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1239 | _writeAlignments(target, store, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/outputFormat.h:1092:9: required from ‘void seqan::dumpMatches(FragmentStore&, StringSet > >&, String&, CharString, CharString, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1092 | write(file, store, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:220:14: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 220 | dumpMatches(store, genomeFileNames, gnoToFileMap, readFileNames[0], errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:777:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 777 | return TIterator(me, end(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::host(Finder&) [with THaystack = Segment, Alloc<> >, InfixSegment>; TSpec = Swift > >; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1813:36: required from ‘bool seqan::_firstNonRepeatRange(TFinder&, Pattern >&) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1813 | finder.endPos = length(host(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1881:34: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1881 | if (!_firstNonRepeatRange(finder, pattern)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:477:13: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 477 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1504:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1504 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:778:42: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 778 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter > seqan::operator+(const Iter >&, TIntegral) [with TContainer = Segment, Alloc<> >, InfixSegment>; TIterator = SimpleType*; TSpec = Tag; TIntegral = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1823:41: required from ‘bool seqan::_firstNonRepeatRange(TFinder&, Pattern >&) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1823 | finder.haystackEnd = begin(tmpHost) + (finder.endPos - length(pattern.shape) + 1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1881:34: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1881 | if (!_firstNonRepeatRange(finder, pattern)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:477:13: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 477 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1504:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1504 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:609:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 609 | return Iter >(container(left), hostIterator(left) + right); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter > seqan::operator+(const Iter >&, TIntegral) [with TContainer = Segment, Alloc<> >, InfixSegment>; TIterator = SimpleType*; TSpec = Tag; TIntegral = unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1792:48: required from ‘bool seqan::_nextNonRepeatRange(TFinder&, Pattern >&) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1792 | hostIterator(finder) = begin(host(finder)) + finder.startPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1912:37: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1912 | if (!_nextNonRepeatRange(finder, pattern)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:477:13: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 477 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1504:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1504 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:609:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 609 | return Iter >(container(left), hostIterator(left) + right); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::host(Finder&) [with THaystack = Segment, Alloc<> >, InfixSegment>; TSpec = Swift > >; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1813:36: required from ‘bool seqan::_firstNonRepeatRange(TFinder&, Pattern >&) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1813 | finder.endPos = length(host(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1881:34: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1881 | if (!_firstNonRepeatRange(finder, pattern)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:477:13: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 477 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1515:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1515 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:778:42: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 778 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h: In instantiation of ‘typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_base.h:297:17: required from ‘typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 297 | return value(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:221:19: required from ‘void seqan::getMDString(TMDString&, TGaps1&, TGaps2&) [with TMDString = String >; TGaps1 = Gaps >, AnchorGaps, Alloc<> > > >; TGaps2 = Gaps >, AnchorGaps, Alloc<> > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 221 | op = (*it1 == *it2)? 'M': 'R'; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:475:16: required from ‘void seqan::alignAndGetCigarString(TCigar&, TMDString&, TContig&, TReadSeq&, TAlignedRead&, TErrors&, const Nothing&) [with TCigar = String >; TMDString = String >; TContig = ContigStoreElement >, GapAnchor, void>; TReadSeq = String >; TErrors = int; TAlignedRead = AlignedReadStoreElement, void>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 475 | getMDString(md, contigGaps, readGaps); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1058:35: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam, const TAlignFunctor&) [with TFile = std::basic_ofstream; TSpec = void; TConfig = FragmentStoreConfig; TAlignFunctor = Nothing; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1058 | alignAndGetCigarString(cigar, md, store.contigStore[(*it).contigId], readSeq, *it, errors, alignFunctor); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1210:25: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam) [with TFile = std::basic_ofstream; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1210 | _writeAlignments(target, store, Sam(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1239:25: required from ‘void seqan::write(TFile&, FragmentStore&, Sam) [with TFile = std::basic_ofstream; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1239 | _writeAlignments(target, store, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/outputFormat.h:1092:9: required from ‘void seqan::dumpMatches(FragmentStore&, StringSet > >&, String&, CharString, CharString, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1092 | write(file, store, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:220:14: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 220 | dumpMatches(store, genomeFileNames, gnoToFileMap, readFileNames[0], errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:211:12: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 211 | return TProxy(it); | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_iterator.h:75: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: initializing argument 1 of ‘seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]’ 99 | Proxy(TIterator const _it) | ~~~~~~~~~~~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h: In instantiation of ‘seqan::Proxy >::Proxy(const seqan::Proxy >&) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_base.h:297:17: required from ‘typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 297 | return value(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:221:19: required from ‘void seqan::getMDString(TMDString&, TGaps1&, TGaps2&) [with TMDString = String >; TGaps1 = Gaps >, AnchorGaps, Alloc<> > > >; TGaps2 = Gaps >, AnchorGaps, Alloc<> > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 221 | op = (*it1 == *it2)? 'M': 'R'; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:475:16: required from ‘void seqan::alignAndGetCigarString(TCigar&, TMDString&, TContig&, TReadSeq&, TAlignedRead&, TErrors&, const Nothing&) [with TCigar = String >; TMDString = String >; TContig = ContigStoreElement >, GapAnchor, void>; TReadSeq = String >; TErrors = int; TAlignedRead = AlignedReadStoreElement, void>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 475 | getMDString(md, contigGaps, readGaps); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1058:35: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam, const TAlignFunctor&) [with TFile = std::basic_ofstream; TSpec = void; TConfig = FragmentStoreConfig; TAlignFunctor = Nothing; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 1058 | alignAndGetCigarString(cigar, md, store.contigStore[(*it).contigId], readSeq, *it, errors, alignFunctor); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1210:25: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam) [with TFile = std::basic_ofstream; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 1210 | _writeAlignments(target, store, Sam(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1239:25: required from ‘void seqan::write(TFile&, FragmentStore&, Sam) [with TFile = std::basic_ofstream; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 1239 | _writeAlignments(target, store, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/outputFormat.h:1092:9: required from ‘void seqan::dumpMatches(FragmentStore&, StringSet > >&, String&, CharString, CharString, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 1092 | write(file, store, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:220:14: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 220 | dumpMatches(store, genomeFileNames, gnoToFileMap, readFileNames[0], errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:106:15: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 106 | : data_iterator(_other.data_iterator) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSource = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TValue2 = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; typename Reference > >::Type = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Swift > >; typename Host >::Type = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:434:32: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 434 | TReadSet &readSetL = host(host(swiftPatternL)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1504:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1504 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >& seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >::operator=(const seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: because ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText_ = seqan::StringSet >, seqan::InfixSegment>, seqan::Owner<> >; TShapeSpec = seqan::Shape, seqan::UngappedShape<0> >; TSpec = seqan::Tag]’ 368 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSource = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TValue2 = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; typename Reference > >::Type = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Swift > >; typename Host >::Type = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1190:32: required from ‘void seqan::mapSingleReads(TFragmentStore&, TGenome&, unsigned int, Pattern >&, TPreprocessing&, char, TRazerSOptions&) [with TFragmentStore = FragmentStore<>; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, Myers > >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 1190 | TReadSet &readSet = host(host(swiftPattern)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1321:19: required from ‘int seqan::mapSingleReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 1321 | mapSingleReads(store, genome, gseqNo, swiftPattern, forwardPatterns, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1459:24: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 1459 | return mapSingleReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1504:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 1504 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:81: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: because ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >’ has user-provided ‘seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::StringSet >, seqan::Owner > >; TShapeSpec = seqan::Shape, seqan::UngappedShape<0> >]’ 159 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSource = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TValue2 = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; typename Reference > >::Type = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Swift > >; typename Host >::Type = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:434:32: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 434 | TReadSet &readSetL = host(host(swiftPatternL)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1507:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 1507 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >& seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >::operator=(const seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: because ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText_ = seqan::StringSet >, seqan::InfixSegment>, seqan::Owner<> >; TShapeSpec = seqan::Shape, seqan::OneGappedShape>; TSpec = seqan::Tag]’ 368 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:333:15: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 333 | class Index > { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >& seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >::operator=(const seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSource = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TValue2 = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; typename Reference > >::Type = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Swift > >; typename Host >::Type = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1190:32: required from ‘void seqan::mapSingleReads(TFragmentStore&, TGenome&, unsigned int, Pattern >&, TPreprocessing&, char, TRazerSOptions&) [with TFragmentStore = FragmentStore<>; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, Myers > >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1190 | TReadSet &readSet = host(host(swiftPattern)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1321:19: required from ‘int seqan::mapSingleReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1321 | mapSingleReads(store, genome, gseqNo, swiftPattern, forwardPatterns, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1459:24: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1459 | return mapSingleReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1507:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1507 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: because ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >’ has user-provided ‘seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::StringSet >, seqan::Owner > >; TShapeSpec = seqan::Shape, seqan::OneGappedShape>]’ 159 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:116:15: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 116 | class Index > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSource = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TValue2 = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; typename Reference > >::Type = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSpec = Swift > >; typename Host >::Type = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:434:32: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 434 | TReadSet &readSetL = host(host(swiftPatternL)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1510:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1510 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >& seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >::operator=(const seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: because ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText_ = seqan::StringSet >, seqan::InfixSegment>, seqan::Owner<> >; TShapeSpec = seqan::Shape, seqan::GappedShape > >; TSpec = seqan::Tag]’ 368 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:333:15: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 333 | class Index > { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >& seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >::operator=(const seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSource = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TValue2 = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; typename Reference > >::Type = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSpec = Swift > >; typename Host >::Type = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1190:32: required from ‘void seqan::mapSingleReads(TFragmentStore&, TGenome&, unsigned int, Pattern >&, TPreprocessing&, char, TRazerSOptions&) [with TFragmentStore = FragmentStore<>; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, Myers > >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1190 | TReadSet &readSet = host(host(swiftPattern)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1321:19: required from ‘int seqan::mapSingleReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1321 | mapSingleReads(store, genome, gseqNo, swiftPattern, forwardPatterns, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1459:24: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1459 | return mapSingleReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1510:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1510 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: because ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >’ has user-provided ‘seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::StringSet >, seqan::Owner > >; TShapeSpec = seqan::Shape, seqan::GappedShape > >]’ 159 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:116:15: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 116 | class Index > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::container(Finder&) [with THaystack = Segment, Alloc<> >, InfixSegment>; TSpec = void; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1724:42: required from ‘bool seqan::find(TFinder&, const Pattern >&, PatternState_ >&) [with TFinder = Finder, Alloc<> >, InfixSegment>, void>; TNeedle = Segment >, InfixSegment>; TSpec = FindInfix; THasState = True; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1724 | TSize haystack_length = length(container(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1756:13: required from ‘bool seqan::find(TFinder&, const Pattern >&, PatternState_ >&, int) [with TFinder = Finder, Alloc<> >, InfixSegment>, void>; TNeedle = Segment >, InfixSegment>; TSpec = FindInfix; THasState = True; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1756 | return find(finder, pattern, state); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1774:13: required from ‘bool seqan::find(TFinder&, Pattern >&, int) [with TFinder = Finder, Alloc<> >, InfixSegment>, void>; TNeedle = Segment >, InfixSegment>; TSpec = FindInfix; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1774 | return find(finder, pattern, pattern, minScore); //static cast /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1015:13: required from ‘bool seqan::matchVerify(TMatchVerifier&, Segment, unsigned int, TReadSet&, SwiftSemiGlobal) [with TMatchVerifier = MatchVerifier, RazerSOptions<>, String >, InfixSegment>, Myers >, Alloc<> >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > > >; TGenome = String, Alloc<> >; TReadSet = StringSet >, InfixSegment>, Owner<> >; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1015 | while (find(myersFinder, myersPattern, minScore)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:542:22: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 542 | if (matchVerify(verifierL, infix(genome, (TSignedGPos)(*it).i2.beginPos, (TSignedGPos)(*it).i2.endPos), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 543 | matePairId, readSetL, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1515:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1515 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:793:42: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 793 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_endDefault(T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:841:23: required from ‘typename seqan::Iterator >::Type seqan::end(T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 841 | return _endDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_reverse.h:463:24: required from ‘typename seqan::Iterator >, const seqan::Tag >::Type seqan::begin(ModifiedString >&, Tag) [with THost = Segment, Alloc<> >, InfixSegment>; TTagSpec = Rooted_; typename Iterator >, const Tag >::Type = ModifiedIterator, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 463 | TIterator temp_(end(host(me), Rooted())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:440:24: required from ‘seqan::Finder::Finder(THaystack&) [with THaystack = seqan::ModifiedString, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Tag >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 440 | : data_iterator(begin(haystack, Rooted())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1069:22: required from ‘bool seqan::matchVerify(TMatchVerifier&, Segment, unsigned int, TReadSet&, SwiftSemiGlobal) [with TMatchVerifier = MatchVerifier, RazerSOptions<>, String >, InfixSegment>, Myers >, Alloc<> >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > > >; TGenome = String, Alloc<> >; TReadSet = StringSet >, InfixSegment>, Owner<> >; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1069 | TMyersFinderRev myersFinderRev(infRev); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:542:22: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 542 | if (matchVerify(verifierL, infix(genome, (TSignedGPos)(*it).i2.beginPos, (TSignedGPos)(*it).i2.endPos), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 543 | matePairId, readSetL, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1515:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1515 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:768:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 768 | return TIterator(me, end(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:139:40: required from ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 139 | : data_container(_toPointer(container_)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: required from ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 541 | return TIterator(me, begin(me, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:600:17: required from ‘typename seqan::Iterator::Type>::Type seqan::begin(const T&) [with T = Segment >, InfixSegment>; typename Iterator::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 600 | return begin(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1013:50: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam, const TAlignFunctor&) [with TFile = std::basic_ofstream; TSpec = void; TConfig = FragmentStoreConfig; TAlignFunctor = Nothing; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1013 | for (TReadNameIterator it = begin(store.readNameStore[readId]); it != end(store.readNameStore[readId]); ++it) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1210:25: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam) [with TFile = std::basic_ofstream; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1210 | _writeAlignments(target, store, Sam(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1239:25: required from ‘void seqan::write(TFile&, FragmentStore&, Sam) [with TFile = std::basic_ofstream; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1239 | _writeAlignments(target, store, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/outputFormat.h:1092:9: required from ‘void seqan::dumpMatches(FragmentStore&, StringSet > >&, String&, CharString, CharString, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1092 | write(file, store, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:220:14: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 220 | dumpMatches(store, genomeFileNames, gnoToFileMap, readFileNames[0], errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h: In instantiation of ‘seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:211:12: required from ‘typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 211 | return TProxy(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_base.h:297:17: required from ‘typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 297 | return value(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:221:19: required from ‘void seqan::getMDString(TMDString&, TGaps1&, TGaps2&) [with TMDString = String >; TGaps1 = Gaps >, AnchorGaps, Alloc<> > > >; TGaps2 = Gaps >, AnchorGaps, Alloc<> > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 221 | op = (*it1 == *it2)? 'M': 'R'; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:475:16: required from ‘void seqan::alignAndGetCigarString(TCigar&, TMDString&, TContig&, TReadSeq&, TAlignedRead&, TErrors&, const Nothing&) [with TCigar = String >; TMDString = String >; TContig = ContigStoreElement >, GapAnchor, void>; TReadSeq = String >; TErrors = int; TAlignedRead = AlignedReadStoreElement, void>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 475 | getMDString(md, contigGaps, readGaps); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1058:35: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam, const TAlignFunctor&) [with TFile = std::basic_ofstream; TSpec = void; TConfig = FragmentStoreConfig; TAlignFunctor = Nothing; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1058 | alignAndGetCigarString(cigar, md, store.contigStore[(*it).contigId], readSeq, *it, errors, alignFunctor); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1210:25: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam) [with TFile = std::basic_ofstream; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1210 | _writeAlignments(target, store, Sam(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1239:25: required from ‘void seqan::write(TFile&, FragmentStore&, Sam) [with TFile = std::basic_ofstream; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1239 | _writeAlignments(target, store, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/outputFormat.h:1092:9: required from ‘void seqan::dumpMatches(FragmentStore&, StringSet > >&, String&, CharString, CharString, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1092 | write(file, store, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:220:14: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 220 | dumpMatches(store, genomeFileNames, gnoToFileMap, readFileNames[0], errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:100:15: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 100 | : data_iterator(_it) | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = unsigned int; TExpand = TagGenerous_; typename Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45: required from ‘static typename seqan::Size::Type seqan::_Resize_String::resize_(T&, typename seqan::Size::Type) [with T = seqan::String, seqan::Alloc<> >; TExpand = seqan::Tag; typename seqan::Size::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1887 | TSize new_capacity = reserve(me, new_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50: required from ‘typename seqan::Size >::Type seqan::resize(String&, TSize, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long int; TExpand = TagGenerous_; typename Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1952 | return _Resize_String >::resize_(me, new_length); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18: required from ‘typename seqan::Size::Type seqan::resize(T&, TSize) [with T = String, Alloc<> >; TSize = long int; typename Size::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 2143 | return resize(me, new_length, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/file_format_mmap.h:793:9: required from ‘void seqan::assignSeq(TSeq&, const TFastaSeq&, Fastq) [with TSeq = String, Alloc<> >; TFastaSeq = Segment >, InfixSegment>; Fastq = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 793 | resize(dst, itEnd - it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/file_format_mmap.h:1423:13: required from ‘void seqan::assignSeq(TSeq&, const TFileSeq&, const TagSelector&) [with TSeq = String, Alloc<> >; TFileSeq = Segment >, InfixSegment>; TTagList = TagList, TagList, TagList > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1423 | assignSeq(dst, seq, TFormatTag()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:481:11: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 481 | assignSeq(firstRead, multiFasta[0], format); // read the first sequence /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:600:17: required from ‘typename seqan::Iterator::Type>::Type seqan::begin(const T&) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator::Type>::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 600 | return begin(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1792:33: required from ‘bool seqan::_nextNonRepeatRange(TFinder&, Pattern >&) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1792 | hostIterator(finder) = begin(host(finder)) + finder.startPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1912:37: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1912 | if (!_nextNonRepeatRange(finder, pattern)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:477:13: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 477 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1504:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1504 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 541 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:61: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_iterator.h: In instantiation of ‘typename seqan::Container >::Type seqan::container(ModifiedIterator&) [with THost = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; TSpec = Tag; typename Container >::Type = ModifiedString, Alloc<> >, InfixSegment>, Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:793:18: required from ‘typename seqan::Parameter_::Type seqan::container(Finder&) [with THaystack = ModifiedString, Alloc<> >, InfixSegment>, Tag >; TSpec = void; typename Parameter_::Type = ModifiedString, Alloc<> >, InfixSegment>, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 793 | return container(hostIterator(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1724:42: required from ‘bool seqan::find(TFinder&, const Pattern >&, PatternState_ >&) [with TFinder = Finder, Alloc<> >, InfixSegment>, Tag >, void>; TNeedle = ModifiedString >, InfixSegment>, Tag >; TSpec = FindPrefix; THasState = True; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1724 | TSize haystack_length = length(container(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1756:13: required from ‘bool seqan::find(TFinder&, const Pattern >&, PatternState_ >&, int) [with TFinder = Finder, Alloc<> >, InfixSegment>, Tag >, void>; TNeedle = ModifiedString >, InfixSegment>, Tag >; TSpec = FindPrefix; THasState = True; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1756 | return find(finder, pattern, state); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1774:13: required from ‘bool seqan::find(TFinder&, Pattern >&, int) [with TFinder = Finder, Alloc<> >, InfixSegment>, Tag >, void>; TNeedle = ModifiedString >, InfixSegment>, Tag >; TSpec = FindPrefix; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1774 | return find(finder, pattern, pattern, minScore); //static cast /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1073:16: required from ‘bool seqan::matchVerify(TMatchVerifier&, Segment, unsigned int, TReadSet&, SwiftSemiGlobal) [with TMatchVerifier = MatchVerifier, RazerSOptions<>, String >, InfixSegment>, Myers >, Alloc<> >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > > >; TGenome = String, Alloc<> >; TReadSet = StringSet >, InfixSegment>, Owner<> >; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1073 | while (find(myersFinderRev, myersPatternRev, /*score*/maxScore)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:542:22: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 542 | if (matchVerify(verifierL, infix(genome, (TSignedGPos)(*it).i2.beginPos, (TSignedGPos)(*it).i2.endPos), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 543 | matePairId, readSetL, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1515:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1515 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_iterator.h:294:16: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 294 | TContainer cont(container(host(me))); | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1444:21: required from ‘void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1444 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1465:31: required from ‘void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1465 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:849:31: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 849 | arrayConstructMove(old_array, old_array + start, seq_array); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42: required from ‘void seqan::append(String&, const TSource&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1421 | AppendString_ >::append_(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_concat_direct.h:318:11: required from ‘void seqan::appendValue(StringSet > >&, const TString2&, Tag) [with TString = String >; TString2 = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 318 | append(me.concat, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:1657:13: required from ‘typename seqan::Size::TMatePairStore>::Type seqan::appendMatePair(FragmentStore&, const TRead&, const TRead&, const CharString&, const CharString&) [with TSpec = void; TConfig = FragmentStoreConfig; TRead = String >; typename Size::TMatePairStore>::Type = long unsigned int; typename FragmentStore::TMatePairStore = String, Alloc<> >; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1657 | appendValue(me.readSeqStore, read1, Generous()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:194:17: required from ‘bool seqan::loadReads(FragmentStore&, const char*, const char*, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 194 | appendMatePair(store, seq[0], seq[1], id[0], id[1]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:167:17: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 167 | if (!loadReads(store, toCString(readFileNames[0]), toCString(readFileNames[1]), options)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1589:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1589 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1925:45: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2153:18: required from ‘typename seqan::Size::Type seqan::resize(T&, TSize, const TValue&) [with T = String >; TSize = int; TValue = SimpleType; typename Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2153 | return resize(me, new_length, val, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:484:9: required from ‘void seqan::initPatterns(TStateString&, const TShape&, int, const TLogErrorDistr&, TDistance, bool) [with TStateString = String, double>, Alloc<> >; TShape = String >; TLogErrorDistr = String; TDistance = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 484 | resize(pattern, span, (ErrorAlphabet)SEQAN_MATCH); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:1118:14: required from ‘void seqan::qgramFilteringSensitivity(TSensitivityMatrix&, const TShape&, TPatternSize, TErrors, TThresh, TDistance, ThreshExact, const TErrorDist&) [with TSensitivityMatrix = String; TShape = Shape, GappedShape > >; TPatternSize = unsigned int; TErrors = unsigned int; TThresh = unsigned int; TDistance = Tag; TErrorDist = String; ThreshExact = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1118 | initPatterns(states, bitString, errors, logErrorDistribution, dist, true); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/paramChooser.h:741:42: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 741 | qgramFilteringSensitivity(sensMat, shape, totalN, maxErrors - 1, maxT - 1, HammingDistance(), ThreshExact(), logErrorDistribution); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/paramChooser.h:1310:30: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1310 | makeSelectedStatsFile(errorDistribution, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:617:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 617 | if (!chooseParams(options,pm_options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveBackwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1641:30: required from ‘void seqan::arrayMoveBackward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1641 | _arrayMoveBackwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1213:26: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = SimpleType*; TSource1 = SimpleType*; TSource2 = SimpleType*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1213 | arrayMoveBackward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1660:14: required from ‘void seqan::_arrayClearSpacePointer(TValue*, size_t, size_t, size_t, const True&) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1660 | arrayMove(array_begin + keep_from, array_begin + array_length, array_begin + move_to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1681:28: required from ‘void seqan::arrayClearSpace(TValue*, size_t, size_t, size_t) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1681 | _arrayClearSpacePointer(array_begin, array_length, keep_from, move_to, typename IsSimple::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:856:28: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 856 | arrayClearSpace(seq_array + start, old_length - start, removed_size, size); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42: required from ‘void seqan::append(String&, const TSource&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1421 | AppendString_ >::append_(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_concat_direct.h:318:11: required from ‘void seqan::appendValue(StringSet > >&, const TString2&, Tag) [with TString = String >; TString2 = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 318 | append(me.concat, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:1657:13: required from ‘typename seqan::Size::TMatePairStore>::Type seqan::appendMatePair(FragmentStore&, const TRead&, const TRead&, const CharString&, const CharString&) [with TSpec = void; TConfig = FragmentStoreConfig; TRead = String >; typename Size::TMatePairStore>::Type = long unsigned int; typename FragmentStore::TMatePairStore = String, Alloc<> >; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1657 | appendValue(me.readSeqStore, read1, Generous()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:194:17: required from ‘bool seqan::loadReads(FragmentStore&, const char*, const char*, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 194 | appendMatePair(store, seq[0], seq[1], id[0], id[1]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:167:17: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 167 | if (!loadReads(store, toCString(readFileNames[0]), toCString(readFileNames[1]), options)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1621:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1621 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = Segment >, InfixSegment>; TSpec = Owner<>; TShape = Shape, UngappedShape<0> >; TDir = String >; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1593:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1593 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, InfixSegment>, Owner<> >; TShapeSpec = Shape, UngappedShape<0> >; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, InfixSegment>, Owner<> >; TSpec = IndexQGram, UngappedShape<0> >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, InfixSegment>, Owner<> >; TSpec = IndexQGram, UngappedShape<0> >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:477:13: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 477 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1504:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1504 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:56: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = Segment >, InfixSegment>; TSpec = Owner<>; TShape = Shape, UngappedShape<0> >; TDir = String >; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1604:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1604 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, InfixSegment>, Owner<> >; TShapeSpec = Shape, UngappedShape<0> >; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, InfixSegment>, Owner<> >; TSpec = IndexQGram, UngappedShape<0> >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, InfixSegment>, Owner<> >; TSpec = IndexQGram, UngappedShape<0> >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:477:13: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 477 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1504:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1504 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, UngappedShape<0> >; TDir = String >; TBucketMap = BucketMap; TStepSize = long unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1593:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1593 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, UngappedShape<0> >; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, UngappedShape<0> >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, UngappedShape<0> >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1199:13: required from ‘void seqan::mapSingleReads(TFragmentStore&, TGenome&, unsigned int, Pattern >&, TPreprocessing&, char, TRazerSOptions&) [with TFragmentStore = FragmentStore<>; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, Myers > >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1199 | while (find(swiftFinder, swiftPattern, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1321:19: required from ‘int seqan::mapSingleReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1321 | mapSingleReads(store, genome, gseqNo, swiftPattern, forwardPatterns, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1459:24: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1459 | return mapSingleReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1504:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1504 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, UngappedShape<0> >; TDir = String >; TBucketMap = BucketMap; TStepSize = long unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1604:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1604 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, UngappedShape<0> >; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, UngappedShape<0> >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, UngappedShape<0> >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1199:13: required from ‘void seqan::mapSingleReads(TFragmentStore&, TGenome&, unsigned int, Pattern >&, TPreprocessing&, char, TRazerSOptions&) [with TFragmentStore = FragmentStore<>; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, Myers > >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1199 | while (find(swiftFinder, swiftPattern, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1321:19: required from ‘int seqan::mapSingleReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1321 | mapSingleReads(store, genome, gseqNo, swiftPattern, forwardPatterns, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1459:24: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1459 | return mapSingleReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1504:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1504 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = Segment >, InfixSegment>; TSpec = Owner<>; TShape = Shape, OneGappedShape>; TDir = String >; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1593:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1593 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, InfixSegment>, Owner<> >; TShapeSpec = Shape, OneGappedShape>; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, InfixSegment>, Owner<> >; TSpec = IndexQGram, OneGappedShape>, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, InfixSegment>, Owner<> >; TSpec = IndexQGram, OneGappedShape>, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:477:13: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 477 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1507:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1507 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = Segment >, InfixSegment>; TSpec = Owner<>; TShape = Shape, OneGappedShape>; TDir = String >; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1604:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1604 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, InfixSegment>, Owner<> >; TShapeSpec = Shape, OneGappedShape>; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, InfixSegment>, Owner<> >; TSpec = IndexQGram, OneGappedShape>, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, InfixSegment>, Owner<> >; TSpec = IndexQGram, OneGappedShape>, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:477:13: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 477 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1507:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1507 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, OneGappedShape>; TDir = String >; TBucketMap = BucketMap; TStepSize = long unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1593:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1593 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, OneGappedShape>; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, OneGappedShape>, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, OneGappedShape>, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1199:13: required from ‘void seqan::mapSingleReads(TFragmentStore&, TGenome&, unsigned int, Pattern >&, TPreprocessing&, char, TRazerSOptions&) [with TFragmentStore = FragmentStore<>; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, Myers > >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1199 | while (find(swiftFinder, swiftPattern, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1321:19: required from ‘int seqan::mapSingleReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1321 | mapSingleReads(store, genome, gseqNo, swiftPattern, forwardPatterns, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1459:24: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1459 | return mapSingleReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1507:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1507 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, OneGappedShape>; TDir = String >; TBucketMap = BucketMap; TStepSize = long unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1604:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1604 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, OneGappedShape>; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, OneGappedShape>, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, OneGappedShape>, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1199:13: required from ‘void seqan::mapSingleReads(TFragmentStore&, TGenome&, unsigned int, Pattern >&, TPreprocessing&, char, TRazerSOptions&) [with TFragmentStore = FragmentStore<>; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, Myers > >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1199 | while (find(swiftFinder, swiftPattern, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1321:19: required from ‘int seqan::mapSingleReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1321 | mapSingleReads(store, genome, gseqNo, swiftPattern, forwardPatterns, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1459:24: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1459 | return mapSingleReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1507:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1507 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = Segment >, InfixSegment>; TSpec = Owner<>; TShape = Shape, GappedShape > >; TDir = String >; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1593:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1593 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, InfixSegment>, Owner<> >; TShapeSpec = Shape, GappedShape > >; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, InfixSegment>, Owner<> >; TSpec = IndexQGram, GappedShape > >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, InfixSegment>, Owner<> >; TSpec = IndexQGram, GappedShape > >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:477:13: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 477 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1510:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1510 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = Segment >, InfixSegment>; TSpec = Owner<>; TShape = Shape, GappedShape > >; TDir = String >; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1604:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1604 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, InfixSegment>, Owner<> >; TShapeSpec = Shape, GappedShape > >; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, InfixSegment>, Owner<> >; TSpec = IndexQGram, GappedShape > >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, InfixSegment>, Owner<> >; TSpec = IndexQGram, GappedShape > >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:477:13: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 477 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1510:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1510 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, GappedShape > >; TDir = String >; TBucketMap = BucketMap; TStepSize = long unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1593:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1593 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, GappedShape > >; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, GappedShape > >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, GappedShape > >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1199:13: required from ‘void seqan::mapSingleReads(TFragmentStore&, TGenome&, unsigned int, Pattern >&, TPreprocessing&, char, TRazerSOptions&) [with TFragmentStore = FragmentStore<>; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, Myers > >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1199 | while (find(swiftFinder, swiftPattern, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1321:19: required from ‘int seqan::mapSingleReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1321 | mapSingleReads(store, genome, gseqNo, swiftPattern, forwardPatterns, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1459:24: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1459 | return mapSingleReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1510:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1510 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, GappedShape > >; TDir = String >; TBucketMap = BucketMap; TStepSize = long unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1604:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1604 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, GappedShape > >; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, GappedShape > >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, GappedShape > >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1199:13: required from ‘void seqan::mapSingleReads(TFragmentStore&, TGenome&, unsigned int, Pattern >&, TPreprocessing&, char, TRazerSOptions&) [with TFragmentStore = FragmentStore<>; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, Myers > >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1199 | while (find(swiftFinder, swiftPattern, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1321:19: required from ‘int seqan::mapSingleReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1321 | mapSingleReads(store, genome, gseqNo, swiftPattern, forwardPatterns, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1459:24: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1459 | return mapSingleReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1510:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1510 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 22; unsigned int BITSIZE2 = 10]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1444:21: required from ‘void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1444 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1465:31: required from ‘void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1465 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:849:31: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 849 | arrayConstructMove(old_array, old_array + start, seq_array); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: required from ‘typename seqan::Size >::Type seqan::_clearSpace(String&, TSize, TPosition, TPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long unsigned int; TPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1014 | return ClearSpaceStringBase_ >::_clearSpace_(me, size, pos_begin, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1048:30: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1845:16: required from ‘void seqan::insertValue(T&, TPosition, const TValue&) [with T = String >; TPosition = int; TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1845 | insertValue(me, pos, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:511:16: required from ‘void seqan::initPatterns(TStateString&, const TShape&, int, const TLogErrorDistr&, TDistance, bool) [with TStateString = String, double>, Alloc<> >; TShape = String >; TLogErrorDistr = String; TDistance = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 511 | insertValue(pattern, mods[i].i1, (ErrorAlphabet)SEQAN_INSERT); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:1118:14: required from ‘void seqan::qgramFilteringSensitivity(TSensitivityMatrix&, const TShape&, TPatternSize, TErrors, TThresh, TDistance, ThreshExact, const TErrorDist&) [with TSensitivityMatrix = String; TShape = Shape, GappedShape > >; TPatternSize = unsigned int; TErrors = unsigned int; TThresh = unsigned int; TDistance = Tag; TErrorDist = String; ThreshExact = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1118 | initPatterns(states, bitString, errors, logErrorDistribution, dist, true); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/paramChooser.h:741:42: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 741 | qgramFilteringSensitivity(sensMat, shape, totalN, maxErrors - 1, maxT - 1, HammingDistance(), ThreshExact(), logErrorDistribution); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/paramChooser.h:1310:30: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1310 | makeSelectedStatsFile(errorDistribution, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:617:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 617 | if (!chooseParams(options,pm_options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1589:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1589 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Segment >, seqan::InfixSegment>*; TParam = seqan::Segment >, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Segment >, InfixSegment>*; TParam = Segment >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:605:23: required from ‘void seqan::_arrayConstructCopyDefault(TSource1, TSource2, TTarget) [with TTarget = Segment >, InfixSegment>*; TSource1 = Segment >, InfixSegment>*; TSource2 = Segment >, InfixSegment>*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 605 | valueConstruct(target_begin, getValue(source_begin)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1420:31: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, False) [with TValueSource = Segment >, InfixSegment>; TValueTarget = Segment >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1420 | _arrayConstructCopyDefault(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = Segment >, InfixSegment>; TValueTarget = Segment >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = Segment >, InfixSegment>; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_base.h:1435:18: required from ‘typename seqan::Size >::Type seqan::resize(StringSet&, TSize, Tag) [with TString = Segment >, InfixSegment>; TSpec = Owner<>; TSize = unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1435 | return resize(me.strings, new_size, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:731:8: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 731 | resize(readSetL, pairCount, Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1504:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1504 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:606:19: required from ‘typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, InfixSegment>, Tag >; TValue = Segment, Alloc<> >, InfixSegment>; typename Value::Type = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 606 | valueConstruct(ret, data); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:735:42: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Segment, Alloc<> >, InfixSegment>; TValue2 = const Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 735 | me.data_value = _holderAllocateObject(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:1018:15: required from ‘void seqan::assignValue(Holder >&, const TSource&) [with TValue = Segment, Alloc<> >, InfixSegment>; TSource = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1018 | create(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:153:20: required from ‘seqan::Holder >::Holder(const THostValue&) [with TValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; THostValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 153 | assignValue(*this, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:267:4: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:460:16: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 460 | TSwiftFinderR swiftFinderR(genomeInf, options.repeatLength, 1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1504:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1504 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveBackwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1641:30: required from ‘void seqan::arrayMoveBackward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1641 | _arrayMoveBackwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1213:26: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = SimpleType*; TSource1 = SimpleType*; TSource2 = SimpleType*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1213 | arrayMoveBackward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1660:14: required from ‘void seqan::_arrayClearSpacePointer(TValue*, size_t, size_t, size_t, const True&) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1660 | arrayMove(array_begin + keep_from, array_begin + array_length, array_begin + move_to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1681:28: required from ‘void seqan::arrayClearSpace(TValue*, size_t, size_t, size_t) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1681 | _arrayClearSpacePointer(array_begin, array_length, keep_from, move_to, typename IsSimple::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:856:28: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 856 | arrayClearSpace(seq_array + start, old_length - start, removed_size, size); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1845:16: required from ‘void seqan::insertValue(T&, TPosition, const TValue&) [with T = String >; TPosition = int; TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1845 | insertValue(me, pos, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:511:16: required from ‘void seqan::initPatterns(TStateString&, const TShape&, int, const TLogErrorDistr&, TDistance, bool) [with TStateString = String, double>, Alloc<> >; TShape = String >; TLogErrorDistr = String; TDistance = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 511 | insertValue(pattern, mods[i].i1, (ErrorAlphabet)SEQAN_INSERT); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:1118:14: required from ‘void seqan::qgramFilteringSensitivity(TSensitivityMatrix&, const TShape&, TPatternSize, TErrors, TThresh, TDistance, ThreshExact, const TErrorDist&) [with TSensitivityMatrix = String; TShape = Shape, GappedShape > >; TPatternSize = unsigned int; TErrors = unsigned int; TThresh = unsigned int; TDistance = Tag; TErrorDist = String; ThreshExact = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1118 | initPatterns(states, bitString, errors, logErrorDistribution, dist, true); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/paramChooser.h:741:42: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 741 | qgramFilteringSensitivity(sensMat, shape, totalN, maxErrors - 1, maxT - 1, HammingDistance(), ThreshExact(), logErrorDistribution); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/paramChooser.h:1310:30: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1310 | makeSelectedStatsFile(errorDistribution, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:617:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 617 | if (!chooseParams(options,pm_options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1621:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1621 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Triple, void>, AlignQualityStoreElement, void>; TSource = Triple, void>, AlignQualityStoreElement, void>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:268:11: required from ‘void seqan::move(TTarget&, TSource&) [with TTarget = Triple, void>, AlignQualityStoreElement, void>; TSource = Triple, void>, AlignQualityStoreElement, void>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 268 | assign(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1056:13: required from ‘void seqan::_arrayMoveForwardDefault(TSource1, TSource2, TTarget) [with TTarget = Triple, void>, AlignQualityStoreElement, void>*; TSource1 = Triple, void>, AlignQualityStoreElement, void>*; TSource2 = Triple, void>, AlignQualityStoreElement, void>*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1056 | move(*target_begin, *source_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1600:29: required from ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, False) [with TValue = Triple, void>, AlignQualityStoreElement, void>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1600 | _arrayMoveForwardDefault(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = Triple, void>, AlignQualityStoreElement, void>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1211:25: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = Triple, void>, AlignQualityStoreElement, void>*; TSource1 = Triple, void>, AlignQualityStoreElement, void>*; TSource2 = Triple, void>, AlignQualityStoreElement, void>*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1211 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1295:22: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:510:14: required from ‘void seqan::mapMatePairReads(FragmentStore&, TGenome&, unsigned int, Pattern >&, Pattern >&, TPreprocessing&, TPreprocessing&, char, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGenome = String, Alloc<> >; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TPreprocessing = String >, InfixSegment>, Myers >, Alloc<> >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 510 | pushBack(fifo, fL); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers_matepairs.h:831:21: required from ‘int seqan::mapMatePairReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 831 | mapMatePairReads(store, genome, contigId, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1456:26: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&, const TShape&, Swift) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1456 | return mapMatePairReads(store, genomeFileNameList, gnoToFileMap, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.h:1504:19: required from ‘int seqan::mapReads(FragmentStore&, StringSet > >&, String&, RazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TGNoToFile = Pair >, unsigned int>; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1504 | return mapReads(store, genomeFileNameList, gnoToFileMap, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:201:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 201 | int error = mapReads(store, genomeFileNames, gnoToFileMap, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:633:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 633 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Triple, void>, seqan::AlignQualityStoreElement, void>& seqan::Triple, void>, seqan::AlignQualityStoreElement, void>::operator=(const seqan::Triple, void>, seqan::AlignQualityStoreElement, void>&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_base.h:162:12: note: because ‘seqan::Triple, void>, seqan::AlignQualityStoreElement, void>’ has user-provided ‘seqan::Triple::Triple(const seqan::Triple&) [with T1 = long int; T2 = seqan::AlignedReadStoreElement, void>; T3 = seqan::AlignQualityStoreElement; TSpec = void]’ 162 | inline Triple(Triple const & _p) | ^~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:51: In function ‘std::__copy_move::__copy_m(char const*, char const*, char*)char*’, inlined from ‘std::__copy_move_a2(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:507:30, inlined from ‘std::__copy_move_a1(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:534:42, inlined from ‘std::__copy_move_a(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:541:31, inlined from ‘std::copy(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:637:7, inlined from ‘seqan::_arrayCopyForwardDefault(char const*, char const*, char*)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:855:16, inlined from ‘seqan::arrayCopyForward(char const*, char const*, char*)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:865:29, inlined from ‘seqan::_arrayConstructCopyPointer(char const*, char const*, char*, seqan::True)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21, inlined from ‘seqan::arrayConstructCopy(char const*, char const*, char*)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31, inlined from ‘seqan::AssignString_ >::assign_ >, char const>(seqan::String >&, char const&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1128:31, inlined from ‘seqan::assign, char, seqan::TagGenerous_>(seqan::String >&, char const&, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1176:42, inlined from ‘seqan::assign, char>(seqan::String >&, char&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1099:11, inlined from ‘seqan::String >::String(char&)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:100:19, inlined from ‘seqan::_parseReadFilepath >, char>(std::basic_ifstream >&, char&)seqan::String >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_parsing.h:330:15, inlined from ‘getGenomeFileNameList >(seqan::String >, seqan::StringSet >, seqan::Owner > >&, seqan::RazerSOptions >&)int’ at /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:90:50: /usr/include/c++/14/bits/stl_algobase.h:438:30: warning: ‘memcpy’ forming offset 1 is out of the bounds [0, 1] of object ‘c’ with type ‘char’ [-Warray-bounds=] 438 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp: In function ‘getGenomeFileNameList >(seqan::String >, seqan::StringSet >, seqan::Owner > >&, seqan::RazerSOptions >&)int’: /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:73:14: note: ‘c’ declared here 73 | char c = _streamGet(file); | ^ In function ‘std::__copy_move::__copy_m(char const*, char const*, char*)char*’, inlined from ‘std::__copy_move_a2(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:507:30, inlined from ‘std::__copy_move_a1(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:534:42, inlined from ‘std::__copy_move_a(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:541:31, inlined from ‘std::copy(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:637:7, inlined from ‘seqan::_arrayCopyForwardDefault(char const*, char const*, char*)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:855:16, inlined from ‘seqan::arrayCopyForward(char const*, char const*, char*)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:865:29, inlined from ‘seqan::_arrayConstructCopyPointer(char const*, char const*, char*, seqan::True)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21, inlined from ‘seqan::arrayConstructCopy(char const*, char const*, char*)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31, inlined from ‘seqan::AppendString_ >::append_ >, char const>(seqan::String >&, char const&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1368:31, inlined from ‘seqan::append, char, seqan::TagGenerous_>(seqan::String >&, char const&, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42, inlined from ‘seqan::append >, char>(seqan::String >&, char&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1608:11, inlined from ‘seqan::_parseReadFilepath >, char>(std::basic_ifstream >&, char&)seqan::String >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_parsing.h:338:9, inlined from ‘getGenomeFileNameList >(seqan::String >, seqan::StringSet >, seqan::Owner > >&, seqan::RazerSOptions >&)int’ at /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:90:50: /usr/include/c++/14/bits/stl_algobase.h:438:30: warning: ‘memcpy’ forming offset 1 is out of the bounds [0, 1] of object ‘c’ with type ‘char’ [-Warray-bounds=] 438 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp: In function ‘getGenomeFileNameList >(seqan::String >, seqan::StringSet >, seqan::Owner > >&, seqan::RazerSOptions >&)int’: /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:73:14: note: ‘c’ declared here 73 | char c = _streamGet(file); | ^ In function ‘std::__copy_move::__copy_m(char const*, char const*, char*)char*’, inlined from ‘std::__copy_move_a2(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:507:30, inlined from ‘std::__copy_move_a1(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:534:42, inlined from ‘std::__copy_move_a(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:541:31, inlined from ‘std::copy(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:637:7, inlined from ‘seqan::_arrayCopyForwardDefault(char const*, char const*, char*)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:855:16, inlined from ‘seqan::arrayCopyForward(char const*, char const*, char*)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:865:29, inlined from ‘seqan::_arrayConstructCopyPointer(char const*, char const*, char*, seqan::True)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21, inlined from ‘seqan::arrayConstructCopy(char const*, char const*, char*)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31, inlined from ‘seqan::AppendString_ >::append_ >, char const>(seqan::String >&, char const&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1368:31, inlined from ‘seqan::append, char, seqan::TagGenerous_>(seqan::String >&, char const&, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42, inlined from ‘seqan::append >, char>(seqan::String >&, char&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1608:11, inlined from ‘seqan::_parse_readShape >, char>(std::basic_fstream >&, char&, seqan::String >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/paramChooser.h:861:15, inlined from ‘seqan::parseGappedParams >, seqan::RazerSSpec >(seqan::RazerSOptions >&, std::basic_fstream >&, seqan::ParamChooserOptions&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/paramChooser.h:1068:25, inlined from ‘seqan::chooseParams >(seqan::RazerSOptions >&, seqan::ParamChooserOptions&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/paramChooser.h:1342:26: /usr/include/c++/14/bits/stl_algobase.h:438:30: warning: ‘memmove’ forming offset 1 is out of the bounds [0, 1] of object ‘c’ with type ‘char’ [-Warray-bounds=] 438 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/razers.cpp:46: /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/paramChooser.h: In function ‘seqan::chooseParams >(seqan::RazerSOptions >&, seqan::ParamChooserOptions&)bool’: /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/paramChooser.h:1043:10: note: ‘c’ declared here 1043 | char c = _streamGet(file); | ^ [ 19%] Building CXX object core/apps/razers2/CMakeFiles/razers2.dir/param_tabs.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/razers2 && /usr/bin/g++ -DSEQAN_DATE=\"\" -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT core/apps/razers2/CMakeFiles/razers2.dir/param_tabs.cpp.o -MF CMakeFiles/razers2.dir/param_tabs.cpp.o.d -o CMakeFiles/razers2.dir/param_tabs.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2/param_tabs.cpp [ 20%] Linking CXX executable ../../../bin/razers2 cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/razers2 && /usr/bin/cmake -E cmake_link_script CMakeFiles/razers2.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/razers2.dir/razers.cpp.o CMakeFiles/razers2.dir/param_tabs.cpp.o -o ../../../bin/razers2 -lrt -L/usr/lib64 -lz make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 20%] Built target razers2 make -f core/apps/sak/CMakeFiles/sak.dir/build.make core/apps/sak/CMakeFiles/sak.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/sak /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/sak /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/sak/CMakeFiles/sak.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f core/apps/sak/CMakeFiles/sak.dir/build.make core/apps/sak/CMakeFiles/sak.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 22%] Building CXX object core/apps/sak/CMakeFiles/sak.dir/sak.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/sak && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT core/apps/sak/CMakeFiles/sak.dir/sak.cpp.o -MF CMakeFiles/sak.dir/sak.cpp.o.d -o CMakeFiles/sak.dir/sak.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/core/apps/sak/sak.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:45, from /builddir/build/BUILD/seqan-1.4.2/core/apps/sak/sak.cpp:42: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/sstream:40, from /builddir/build/BUILD/seqan-1.4.2/core/apps/sak/sak.cpp:40: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/fai_index.h:40, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:83, from /builddir/build/BUILD/seqan-1.4.2/core/apps/sak/sak.cpp:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_iterator.h:65, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:86, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:44: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/write_fasta_fastq.h:379:64: required from ‘int seqan::writeRecord(TStream&, const TIdString&, const TSeqString&, const TQualString&, const Fastq&, const SequenceOutputOptions&) [with TStream = std::basic_ostream; TIdString = String >; TQualString = Segment >, InfixSegment>; TSeqString = Segment, Alloc<> >, InfixSegment>; Fastq = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 379 | for (typename Iterator::Type it = begin(seq, Rooted()); !atEnd(it); ++it) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/sak/sak.cpp:501:36: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 501 | if (writeRecord(*outPtr, id, infix(seqCopy, infixBegin, infixEnd), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 502 | infix(quals, infixBegin, infixEnd), seqan::Fastq(), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 503 | options.seqOutOptions) != 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:147:15: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 147 | : data_container(other_.data_container), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:93, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/write_fasta_fastq.h:379:64: required from ‘int seqan::writeRecord(TStream&, const TIdString&, const TSeqString&, const TQualString&, const Fastq&, const SequenceOutputOptions&) [with TStream = std::basic_ostream; TIdString = String >; TQualString = Segment >, InfixSegment>; TSeqString = Segment >, InfixSegment>; Fastq = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 379 | for (typename Iterator::Type it = begin(seq, Rooted()); !atEnd(it); ++it) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/sak/sak.cpp:523:36: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 523 | if (writeRecord(*outPtr, id, infix(seq, infixBegin, infixEnd), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 524 | infix(quals, infixBegin, infixEnd), seqan::Fastq(), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 525 | options.seqOutOptions) != 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:147:15: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 147 | : data_container(other_.data_container), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/write_fasta_fastq.h:379:74: required from ‘int seqan::writeRecord(TStream&, const TIdString&, const TSeqString&, const TQualString&, const Fastq&, const SequenceOutputOptions&) [with TStream = std::basic_ostream; TIdString = String >; TQualString = Segment >, InfixSegment>; TSeqString = Segment, Alloc<> >, InfixSegment>; Fastq = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 379 | for (typename Iterator::Type it = begin(seq, Rooted()); !atEnd(it); ++it) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/sak/sak.cpp:501:36: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 501 | if (writeRecord(*outPtr, id, infix(seqCopy, infixBegin, infixEnd), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 502 | infix(quals, infixBegin, infixEnd), seqan::Fastq(), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 503 | options.seqOutOptions) != 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 541 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/write_fasta_fastq.h:379:74: required from ‘int seqan::writeRecord(TStream&, const TIdString&, const TSeqString&, const TQualString&, const Fastq&, const SequenceOutputOptions&) [with TStream = std::basic_ostream; TIdString = String >; TQualString = Segment >, InfixSegment>; TSeqString = Segment >, InfixSegment>; Fastq = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 379 | for (typename Iterator::Type it = begin(seq, Rooted()); !atEnd(it); ++it) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/sak/sak.cpp:523:36: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 523 | if (writeRecord(*outPtr, id, infix(seq, infixBegin, infixEnd), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 524 | infix(quals, infixBegin, infixEnd), seqan::Fastq(), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 525 | options.seqOutOptions) != 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 541 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_endDefault(const T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:850:23: required from ‘typename seqan::Iterator >::Type seqan::end(const T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 850 | return _endDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:832:15: required from ‘typename seqan::Iterator::Type>::Type seqan::end(const T&) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator::Type>::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 832 | return end(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/write_fasta_fastq.h:361:63: required from ‘int seqan::writeRecord(TStream&, const TIdString&, const TSeqString&, const TQualString&, const Fastq&, const SequenceOutputOptions&) [with TStream = std::basic_ostream; TIdString = String >; TQualString = Segment >, InfixSegment>; TSeqString = Segment, Alloc<> >, InfixSegment>; Fastq = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 361 | typename Iterator::Type it_end = end(seq); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/sak/sak.cpp:501:36: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 501 | if (writeRecord(*outPtr, id, infix(seqCopy, infixBegin, infixEnd), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 502 | infix(quals, infixBegin, infixEnd), seqan::Fastq(), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 503 | options.seqOutOptions) != 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:777:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 777 | return TIterator(me, end(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_endDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:850:23: required from ‘typename seqan::Iterator >::Type seqan::end(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 850 | return _endDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:832:15: required from ‘typename seqan::Iterator::Type>::Type seqan::end(const T&) [with T = Segment >, InfixSegment>; typename Iterator::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 832 | return end(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/write_fasta_fastq.h:361:63: required from ‘int seqan::writeRecord(TStream&, const TIdString&, const TSeqString&, const TQualString&, const Fastq&, const SequenceOutputOptions&) [with TStream = std::basic_ostream; TIdString = String >; TQualString = Segment >, InfixSegment>; TSeqString = Segment >, InfixSegment>; Fastq = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 361 | typename Iterator::Type it_end = end(seq); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/sak/sak.cpp:523:36: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 523 | if (writeRecord(*outPtr, id, infix(seq, infixBegin, infixEnd), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 524 | infix(quals, infixBegin, infixEnd), seqan::Fastq(), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 525 | options.seqOutOptions) != 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:777:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 777 | return TIterator(me, end(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:92: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:139:40: required from ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 139 | : data_container(_toPointer(container_)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: required from ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 541 | return TIterator(me, begin(me, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/write_fasta_fastq.h:379:74: required from ‘int seqan::writeRecord(TStream&, const TIdString&, const TSeqString&, const TQualString&, const Fastq&, const SequenceOutputOptions&) [with TStream = std::basic_ostream; TIdString = String >; TQualString = Segment >, InfixSegment>; TSeqString = Segment, Alloc<> >, InfixSegment>; Fastq = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 379 | for (typename Iterator::Type it = begin(seq, Rooted()); !atEnd(it); ++it) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/sak/sak.cpp:501:36: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 501 | if (writeRecord(*outPtr, id, infix(seqCopy, infixBegin, infixEnd), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 502 | infix(quals, infixBegin, infixEnd), seqan::Fastq(), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 503 | options.seqOutOptions) != 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:139:40: required from ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 139 | : data_container(_toPointer(container_)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: required from ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 541 | return TIterator(me, begin(me, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/write_fasta_fastq.h:379:74: required from ‘int seqan::writeRecord(TStream&, const TIdString&, const TSeqString&, const TQualString&, const Fastq&, const SequenceOutputOptions&) [with TStream = std::basic_ostream; TIdString = String >; TQualString = Segment >, InfixSegment>; TSeqString = Segment >, InfixSegment>; Fastq = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 379 | for (typename Iterator::Type it = begin(seq, Rooted()); !atEnd(it); ++it) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/sak/sak.cpp:523:36: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 523 | if (writeRecord(*outPtr, id, infix(seq, infixBegin, infixEnd), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 524 | infix(quals, infixBegin, infixEnd), seqan::Fastq(), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 525 | options.seqOutOptions) != 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:131:16: required from ‘seqan::String >::String(const seqan::String >&) [with TValue = seqan::SimpleType; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 131 | reserve(*this, std::min(capacity(source), computeGenerousCapacity(source, length(source))), Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/sak/sak.cpp:492:45: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 492 | seqan::Dna5String seqCopy = seq; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 22%] Linking CXX executable ../../../bin/sak cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/sak && /usr/bin/cmake -E cmake_link_script CMakeFiles/sak.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/sak.dir/sak.cpp.o -o ../../../bin/sak -lrt In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 22%] Built target sak make -f core/apps/sam2matrix/CMakeFiles/sam2matrix.dir/build.make core/apps/sam2matrix/CMakeFiles/sam2matrix.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/sam2matrix /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/sam2matrix /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/sam2matrix/CMakeFiles/sam2matrix.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f core/apps/sam2matrix/CMakeFiles/sam2matrix.dir/build.make core/apps/sam2matrix/CMakeFiles/sam2matrix.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 24%] Building CXX object core/apps/sam2matrix/CMakeFiles/sam2matrix.dir/sam2matrix.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/sam2matrix && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT core/apps/sam2matrix/CMakeFiles/sam2matrix.dir/sam2matrix.cpp.o -MF CMakeFiles/sam2matrix.dir/sam2matrix.cpp.o.d -o CMakeFiles/sam2matrix.dir/sam2matrix.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/core/apps/sam2matrix/sam2matrix.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:45, from /builddir/build/BUILD/seqan-1.4.2/core/apps/sam2matrix/sam2matrix.cpp:43: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/stl_tree.h:65, from /usr/include/c++/14/map:62, from /builddir/build/BUILD/seqan-1.4.2/core/apps/sam2matrix/sam2matrix.cpp:37: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:48: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_stream.h:50, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:107: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58, from /builddir/build/BUILD/seqan-1.4.2/core/apps/sam2matrix/sam2matrix.cpp:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/read_fasta_fastq.h:262:12: required from ‘int seqan::_clearAndReserveMemory(TIdString&, TSeqString&, RecordReader >&, const TTag&) [with TIdString = String >; TSeqString = String, Alloc<> >; TFile = String >; TSpec = Tag; TTag = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 262 | reserve(seq, seqLength, Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/read_fasta_fastq.h:557:37: required from ‘int seqan::readRecord(TIdString&, TSeqString&, RecordReader&, const Fasta&) [with TIdString = String >; TSeqString = String, Alloc<> >; TFile = String >; TPass = DoublePass >; Fasta = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 557 | int res = _clearAndReserveMemory(meta, seq, reader, Fasta()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:501:40: required from ‘int seqan::SequenceStreamImpl_::readRecord(TId&, TSequence&, const TFormatTag&) [with TId = seqan::String >; TSequence = seqan::String, seqan::Alloc<> >; TFormatTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 501 | res = seqan::readRecord(id, seq, *_mmapReaderDoublePass, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream.h:697:38: required from ‘int seqan::readRecord(TId&, TSequence&, SequenceStream&) [with TId = String >; TSequence = String, Alloc<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 697 | res = seqIO._impl->readRecord(id, seq, Fasta()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/sam2matrix/sam2matrix.cpp:155:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 155 | if (readRecord(id, seq, seqStream) != 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:64, from /builddir/build/BUILD/seqan-1.4.2/core/apps/sam2matrix/sam2matrix.cpp:46: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h: In member function ‘void seqan::SequenceStreamImpl_::_guessFileTypeAndFormatForReadingAndInitialize()’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:310:25: warning: this statement may fall through [-Wimplicit-fallthrough=] 310 | _fileFormat = this->_checkFormat(*_istreamReader); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:313:9: note: here 313 | case SeqIOFileType_::FILE_TYPE_AUTO: | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/new_allocator.h:34, from /usr/include/c++/14/x86_64-redhat-linux/bits/c++allocator.h:33, from /usr/include/c++/14/bits/allocator.h:46, from /usr/include/c++/14/bits/stl_tree.h:64: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/apps/sam2matrix/sam2matrix.cpp:38: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 24%] Linking CXX executable ../../../bin/sam2matrix cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/sam2matrix && /usr/bin/cmake -E cmake_link_script CMakeFiles/sam2matrix.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/sam2matrix.dir/sam2matrix.cpp.o -o ../../../bin/sam2matrix -lrt -L/usr/lib64 -lz In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 24%] Built target sam2matrix make -f core/apps/samcat/CMakeFiles/samcat.dir/build.make core/apps/samcat/CMakeFiles/samcat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/samcat /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/samcat /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/samcat/CMakeFiles/samcat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f core/apps/samcat/CMakeFiles/samcat.dir/build.make core/apps/samcat/CMakeFiles/samcat.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 25%] Building CXX object core/apps/samcat/CMakeFiles/samcat.dir/samcat.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/samcat && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT core/apps/samcat/CMakeFiles/samcat.dir/samcat.cpp.o -MF CMakeFiles/samcat.dir/samcat.cpp.o.d -o CMakeFiles/samcat.dir/samcat.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/core/apps/samcat/samcat.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:45, from /builddir/build/BUILD/seqan-1.4.2/core/apps/samcat/samcat.cpp:37: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/core/apps/samcat/samcat.cpp:35: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:48: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_stream.h:50, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:107: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 25%] Linking CXX executable ../../../bin/samcat cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/samcat && /usr/bin/cmake -E cmake_link_script CMakeFiles/samcat.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/samcat.dir/samcat.cpp.o -o ../../../bin/samcat -lrt -L/usr/lib64 -lz In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 25%] Built target samcat make -f core/apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/build.make core/apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/seqan_tcoffee /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/seqan_tcoffee /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f core/apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/build.make core/apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 25%] Building CXX object core/apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/seqan_tcoffee.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/seqan_tcoffee && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT core/apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/seqan_tcoffee.cpp.o -MF CMakeFiles/seqan_tcoffee.dir/seqan_tcoffee.cpp.o.d -o CMakeFiles/seqan_tcoffee.dir/seqan_tcoffee.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/core/apps/seqan_tcoffee/seqan_tcoffee.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/stream.h:86, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/score.h:42, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa.h:37, from /builddir/build/BUILD/seqan-1.4.2/core/apps/seqan_tcoffee/seqan_tcoffee.cpp:22: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /builddir/build/BUILD/seqan-1.4.2/core/apps/seqan_tcoffee/seqan_tcoffee.cpp:18: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa.h:39: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa.h:44: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_base.h:343:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 343 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa.h:48: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_guidetree.h: In function ‘void seqan::njTree(const String&, Graph >&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_guidetree.h:148:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 148 | for (unsigned i = 0; i < length(mat); ++i) | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_guidetree.h:152:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 152 | String<__int64> av; // Average branch length to a combined node | ^~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa.h:49: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h: In function ‘void seqan::read(TFile&, StringSet&, TNames&, FastaAlign)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:416:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 416 | if (atEnd(reader)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:420:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 420 | TString seq; | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h: In function ‘void seqan::read(TFile&, String&, String&, const TNames&, FastaAlign)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:534:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 534 | if (atEnd(reader)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:538:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 538 | String mat; | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h: In function ‘void seqan::read(TFile&, String&, String&, const TStringSet&, const TNames&, MummerLib)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:878:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 878 | if (atEnd(reader)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:880:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 880 | TName seq1; | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h: In function ‘void seqan::read(TFile&, Graph >&, TNames&, NewickFormat)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:985:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 985 | if (atEnd(reader)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:988:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 988 | TVertexDescriptor lastVertex = nilVertex; | ^~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/fai_index.h:40, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:83, from /builddir/build/BUILD/seqan-1.4.2/core/apps/seqan_tcoffee/seqan_tcoffee.cpp:25: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:55, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa.h:40: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h: In instantiation of ‘void seqan::findIntervalsExcludeTouching(const Graph&, const TPropertyMap&, TValue, String&) [with TSpec = Directed >; TPropertyMap = String > > > >; TValue = long unsigned int; TCargo = Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align/graph_algorithm_refine_exact_iterative.h:576:34: required from ‘void seqan::matchRefinement(TAlignmentString&, StringSet&, TScore&, TOutGraph&, typename Size::Type>::Type, TAnnotation&, Tag) [with TAlignmentString = String >; TAnnotation = bool; TOutGraph = Graph, Alloc<> >, Dependent > >, long unsigned int, Tag > >; TSequence = String, Alloc<> >; TSetSpec = Dependent >; TScore = long unsigned int; TTagSpec = TagExactRefinement_; typename Size::Type>::Type = long unsigned int; typename Value::Type = Fragment<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 576 | findIntervalsExcludeTouching(gs[seq_i_pos],pms[seq_i_pos],node_i,relevant_segments); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align/graph_algorithm_refine_exact_iterative.h:700:17: required from ‘void seqan::matchRefinement(TFragmentString&, StringSet&, TOutGraph&) [with TFragmentString = String >; TOutGraph = Graph, Alloc<> >, Dependent > >, long unsigned int, Tag > >; TSequence = String, Alloc<> >; TSetSpec = Dependent >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 700 | matchRefinement(matches,strSet,fake_score,ali_graph,1,anno,ExactRefinement()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_base.h:229:17: required from ‘void seqan::buildAlignmentGraph(String&, Graph >&, FrequencyCounting) [with TFragment = Fragment<>; TSpec1 = Alloc<>; TStringSet = StringSet, Alloc<> >, Dependent > >; TCargo = long unsigned int; TSpec = Tag; FrequencyCounting = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 229 | matchRefinement(matches,strSet,outGraph); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_msa.h:115:21: required from ‘void seqan::evaluateAlignment(const MsaOptions&) [with TAlphabet = SimpleType; TScore = Score >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 115 | buildAlignmentGraph(matches, g, FrequencyCounting() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqan_tcoffee/seqan_tcoffee.cpp:258:26: required from ‘void _initMsaParams(seqan::ArgumentParser&, TScore&) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 258 | evaluateAlignment(msaOpt); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqan_tcoffee/seqan_tcoffee.cpp:282:29: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 282 | _initMsaParams(parser, sc); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:2068:26: warning: implicitly-declared ‘seqan::IntervalTreeNode > > >& seqan::IntervalTreeNode > > >::operator=(const seqan::IntervalTreeNode > > >&)’ is deprecated [-Wdeprecated-copy] 2068 | act_prop = property(pm,act_knot); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: because ‘seqan::IntervalTreeNode > > >’ has user-provided ‘seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]’ 398 | IntervalTreeNode(IntervalTreeNode const & other): | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:2079:43: warning: implicitly-declared ‘seqan::IntervalTreeNode > > >& seqan::IntervalTreeNode > > >::operator=(const seqan::IntervalTreeNode > > >&)’ is deprecated [-Wdeprecated-copy] 2079 | next_prop = property(pm,targetVertex(it)); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: because ‘seqan::IntervalTreeNode > > >’ has user-provided ‘seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]’ 398 | IntervalTreeNode(IntervalTreeNode const & other): | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:2100:51: warning: implicitly-declared ‘seqan::IntervalTreeNode > > >& seqan::IntervalTreeNode > > >::operator=(const seqan::IntervalTreeNode > > >&)’ is deprecated [-Wdeprecated-copy] 2100 | next_prop = property(pm,targetVertex(it)); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: because ‘seqan::IntervalTreeNode > > >’ has user-provided ‘seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]’ 398 | IntervalTreeNode(IntervalTreeNode const & other): | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58, from /builddir/build/BUILD/seqan-1.4.2/core/apps/seqan_tcoffee/seqan_tcoffee.cpp:21: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:131:16: required from ‘seqan::String >::String(const seqan::String >&) [with TValue = seqan::SimpleType; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 131 | reserve(*this, std::min(capacity(source), computeGenerousCapacity(source, length(source))), Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align/graph_impl_align.h:1892:17: required from ‘bool seqan::convertAlignment(const Graph >&, TMatrix&) [with TStringSet = StringSet, Alloc<> >, Dependent > >; TCargo = long unsigned int; TSpec = Tag; TMatrix = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 1892 | TStringSetStr str = label(g,it->second); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_msa.h:145:22: required from ‘void seqan::evaluateAlignment(const MsaOptions&) [with TAlphabet = SimpleType; TScore = Score >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 145 | if (convertAlignment(g, mat)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqan_tcoffee/seqan_tcoffee.cpp:258:26: required from ‘void _initMsaParams(seqan::ArgumentParser&, TScore&) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 258 | evaluateAlignment(msaOpt); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqan_tcoffee/seqan_tcoffee.cpp:282:29: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 282 | _initMsaParams(parser, sc); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:131:16: required from ‘seqan::String >::String(const seqan::String >&) [with TValue = seqan::SimpleType; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 131 | reserve(*this, std::min(capacity(source), computeGenerousCapacity(source, length(source))), Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align/graph_impl_align.h:1892:17: required from ‘bool seqan::convertAlignment(const Graph >&, TMatrix&) [with TStringSet = StringSet, Alloc<> >, Dependent > >; TCargo = long unsigned int; TSpec = Tag; TMatrix = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1892 | TStringSetStr str = label(g,it->second); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_msa.h:145:22: required from ‘void seqan::evaluateAlignment(const MsaOptions&) [with TAlphabet = SimpleType; TScore = Score >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 145 | if (convertAlignment(g, mat)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqan_tcoffee/seqan_tcoffee.cpp:258:26: required from ‘void _initMsaParams(seqan::ArgumentParser&, TScore&) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 258 | evaluateAlignment(msaOpt); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqan_tcoffee/seqan_tcoffee.cpp:302:29: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 302 | _initMsaParams(parser, sc); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:131:16: required from ‘seqan::String >::String(const seqan::String >&) [with TValue = seqan::SimpleType; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 131 | reserve(*this, std::min(capacity(source), computeGenerousCapacity(source, length(source))), Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align/graph_impl_align.h:1892:17: required from ‘bool seqan::convertAlignment(const Graph >&, TMatrix&) [with TStringSet = StringSet, Alloc<> >, Dependent > >; TCargo = long unsigned int; TSpec = Tag; TMatrix = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1892 | TStringSetStr str = label(g,it->second); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_msa.h:145:22: required from ‘void seqan::evaluateAlignment(const MsaOptions&) [with TAlphabet = SimpleType; TScore = Score >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 145 | if (convertAlignment(g, mat)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqan_tcoffee/seqan_tcoffee.cpp:258:26: required from ‘void _initMsaParams(seqan::ArgumentParser&, TScore&) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 258 | evaluateAlignment(msaOpt); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqan_tcoffee/seqan_tcoffee.cpp:322:34: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 322 | _initMsaParams(parser, sc); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 25%] Linking CXX executable ../../../bin/seqan_tcoffee cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/seqan_tcoffee && /usr/bin/cmake -E cmake_link_script CMakeFiles/seqan_tcoffee.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/seqan_tcoffee.dir/seqan_tcoffee.cpp.o -o ../../../bin/seqan_tcoffee -lrt make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 25%] Built target seqan_tcoffee make -f core/apps/seqcons/CMakeFiles/seqcons.dir/build.make core/apps/seqcons/CMakeFiles/seqcons.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/seqcons /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/seqcons/CMakeFiles/seqcons.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f core/apps/seqcons/CMakeFiles/seqcons.dir/build.make core/apps/seqcons/CMakeFiles/seqcons.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 27%] Building CXX object core/apps/seqcons/CMakeFiles/seqcons.dir/seqcons.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/seqcons && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT core/apps/seqcons/CMakeFiles/seqcons.dir/seqcons.cpp.o -MF CMakeFiles/seqcons.dir/seqcons.cpp.o.d -o CMakeFiles/seqcons.dir/seqcons.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/stream.h:86, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/score.h:42, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus.h:37, from /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:24: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:23: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus.h:40: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus.h:42: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa.h:44, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus.h:43: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_base.h:343:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 343 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa.h:48: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_guidetree.h: In function ‘void seqan::njTree(const String&, Graph >&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_guidetree.h:148:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 148 | for (unsigned i = 0; i < length(mat); ++i) | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_guidetree.h:152:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 152 | String<__int64> av; // Average branch length to a combined node | ^~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa.h:49: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h: In function ‘void seqan::read(TFile&, StringSet&, TNames&, FastaAlign)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:416:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 416 | if (atEnd(reader)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:420:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 420 | TString seq; | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h: In function ‘void seqan::read(TFile&, String&, String&, const TNames&, FastaAlign)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:534:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 534 | if (atEnd(reader)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:538:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 538 | String mat; | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h: In function ‘void seqan::read(TFile&, String&, String&, const TStringSet&, const TNames&, MummerLib)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:878:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 878 | if (atEnd(reader)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:880:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 880 | TName seq1; | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h: In function ‘void seqan::read(TFile&, Graph >&, TNames&, NewickFormat)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:985:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 985 | if (atEnd(reader)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:988:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 988 | TVertexDescriptor lastVertex = nilVertex; | ^~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus.h:44: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus.h:48: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_base.h: In function ‘void seqan::getGappedConsensus(FragmentStore&, TGappedConsensus&, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_base.h:387:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 387 | for(int i = 0; i < ((int) itGaps->gapPos - (int) itGaps->seqPos) - diff; ++i) | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_base.h:389:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 389 | diff = (itGaps->gapPos - itGaps->seqPos); | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus.h:51: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_library.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_library.h:91:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 91 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_library.h:102:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 102 | public ::std::unary_function >, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp: In function ‘seqan::ArgumentParser::ParseResult parseCommandLine(seqan::ConsensusOptions&, int, const char**)’: /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:94:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 94 | if (res != seqan::ArgumentParser::PARSE_OK) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:98:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 98 | getOptionValue(consOpt.readsfile, parser, "reads"); | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp: In function ‘int main(int, const char**)’: /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:240:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 240 | if (res != seqan::ArgumentParser::PARSE_OK) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:244:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 244 | typedef FragmentStore<> TFragmentStore; | ^~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_iterator.h:65, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:86: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:600:17: required from ‘typename seqan::Iterator::Type>::Type seqan::begin(const T&) [with T = Segment >, InfixSegment>; typename Iterator::Type>::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:244:9: note: 600 | return begin(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:244:9: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io.h:971:31: required from ‘int seqan::write(TFile&, FragmentStore&, Amos) [with TFile = _IO_FILE*; TSpec = void; TConfig = FragmentStoreConfig; Amos = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:244:9: note: 971 | TSeqIter seqIt = begin(value(fragStore.readSeqStore, idCount)); /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:244:9: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:207:8: required from ‘int writeOutput(TFragmentStore&, const seqan::ConsensusOptions&) [with TFragmentStore = seqan::FragmentStore<>]’ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:244:9: note: 207 | write(strmWrite, fragStore, Amos()); /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:244:9: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:308:22: required from here /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:244:9: note: 308 | ret = writeOutput(fragStore, consOpt); /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:244:9: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:147:15: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 147 | : data_container(other_.data_container), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:93, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:600:17: required from ‘typename seqan::Iterator::Type>::Type seqan::begin(const T&) [with T = Segment >, InfixSegment>; typename Iterator::Type>::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 600 | return begin(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io.h:971:31: required from ‘int seqan::write(TFile&, FragmentStore&, Amos) [with TFile = _IO_FILE*; TSpec = void; TConfig = FragmentStoreConfig; Amos = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 971 | TSeqIter seqIt = begin(value(fragStore.readSeqStore, idCount)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:207:8: required from ‘int writeOutput(TFragmentStore&, const seqan::ConsensusOptions&) [with TFragmentStore = seqan::FragmentStore<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 207 | write(strmWrite, fragStore, Amos()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:308:22: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 308 | ret = writeOutput(fragStore, consOpt); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 541 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_endDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:850:23: required from ‘typename seqan::Iterator >::Type seqan::end(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 850 | return _endDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:832:15: required from ‘typename seqan::Iterator::Type>::Type seqan::end(const T&) [with T = Segment >, InfixSegment>; typename Iterator::Type>::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 832 | return end(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io.h:972:32: required from ‘int seqan::write(TFile&, FragmentStore&, Amos) [with TFile = _IO_FILE*; TSpec = void; TConfig = FragmentStoreConfig; Amos = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 972 | TSeqIter seqItEnd = end(value(fragStore.readSeqStore, idCount)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:207:8: required from ‘int writeOutput(TFragmentStore&, const seqan::ConsensusOptions&) [with TFragmentStore = seqan::FragmentStore<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 207 | write(strmWrite, fragStore, Amos()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:308:22: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 308 | ret = writeOutput(fragStore, consOpt); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:777:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 777 | return TIterator(me, end(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:55, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h: In instantiation of ‘void seqan::findIntervalsExcludeTouching(const Graph&, const TPropertyMap&, TValue, String&) [with TSpec = Directed >; TPropertyMap = String > > > >; TValue = long unsigned int; TCargo = Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align/graph_algorithm_refine_exact_iterative.h:576:34: required from ‘void seqan::matchRefinement(TAlignmentString&, StringSet&, TScore&, TOutGraph&, typename Size::Type>::Type, TAnnotation&, Tag) [with TAlignmentString = String >; TAnnotation = bool; TOutGraph = Graph >, Dependent > >, long unsigned int, Tag > >; TSequence = String >; TSetSpec = Dependent >; TScore = long unsigned int; TTagSpec = TagExactRefinement_; typename Size::Type>::Type = long unsigned int; typename Value::Type = Fragment<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 576 | findIntervalsExcludeTouching(gs[seq_i_pos],pms[seq_i_pos],node_i,relevant_segments); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align/graph_algorithm_refine_exact_iterative.h:700:17: required from ‘void seqan::matchRefinement(TFragmentString&, StringSet&, TOutGraph&) [with TFragmentString = String >; TOutGraph = Graph >, Dependent > >, long unsigned int, Tag > >; TSequence = String >; TSetSpec = Dependent >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 700 | matchRefinement(matches,strSet,fake_score,ali_graph,1,anno,ExactRefinement()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_base.h:182:17: required from ‘void seqan::buildAlignmentGraph(String&, String&, Graph >&, FractionalScore) [with TFragment = Fragment<>; TSpec1 = Alloc<>; TScoreValue = int; TSpec2 = Alloc<>; TStringSet = StringSet >, Dependent > >; TCargo = long unsigned int; TSpec = Tag; FractionalScore = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 182 | matchRefinement(matches,strSet,outGraph); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_base.h:311:21: required from ‘void seqan::buildAlignmentGraph(String&, String&, Graph >&, const TScore&, ReScore) [with TFragment = Fragment<>; TSpec1 = Alloc<>; TScoreValue = int; TSpec2 = Alloc<>; TStringSet = StringSet >, Dependent > >; TCargo = long unsigned int; TSpec = Tag; TScore = Score >; ReScore = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 311 | buildAlignmentGraph(matches, scores, outGraph, FractionalScore() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_base.h:564:21: required from ‘void seqan::consensusAlignment(Graph >&, String >&, const TConfigOptions&) [with TStringSet = StringSet >, Dependent > >; TCargo = void; TSpec = const Tag; TSize = long unsigned int; TConfigOptions = ConsensusOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 564 | buildAlignmentGraph(matches, scores, g, consOpt.sc, ReScore() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:278:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 278 | consensusAlignment(gOut, begEndPos, consOpt); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:2068:26: warning: implicitly-declared ‘seqan::IntervalTreeNode > > >& seqan::IntervalTreeNode > > >::operator=(const seqan::IntervalTreeNode > > >&)’ is deprecated [-Wdeprecated-copy] 2068 | act_prop = property(pm,act_knot); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: because ‘seqan::IntervalTreeNode > > >’ has user-provided ‘seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]’ 398 | IntervalTreeNode(IntervalTreeNode const & other): | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:2079:43: warning: implicitly-declared ‘seqan::IntervalTreeNode > > >& seqan::IntervalTreeNode > > >::operator=(const seqan::IntervalTreeNode > > >&)’ is deprecated [-Wdeprecated-copy] 2079 | next_prop = property(pm,targetVertex(it)); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: because ‘seqan::IntervalTreeNode > > >’ has user-provided ‘seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]’ 398 | IntervalTreeNode(IntervalTreeNode const & other): | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:2100:51: warning: implicitly-declared ‘seqan::IntervalTreeNode > > >& seqan::IntervalTreeNode > > >::operator=(const seqan::IntervalTreeNode > > >&)’ is deprecated [-Wdeprecated-copy] 2100 | next_prop = property(pm,targetVertex(it)); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: because ‘seqan::IntervalTreeNode > > >’ has user-provided ‘seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]’ 398 | IntervalTreeNode(IntervalTreeNode const & other): | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:600:17: required from ‘typename seqan::Iterator::Type>::Type seqan::begin(const T&) [with T = Segment >, InfixSegment>; typename Iterator::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 600 | return begin(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1013:50: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam, const TAlignFunctor&) [with TFile = _IO_FILE*; TSpec = void; TConfig = FragmentStoreConfig; TAlignFunctor = Nothing; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 1013 | for (TReadNameIterator it = begin(store.readNameStore[readId]); it != end(store.readNameStore[readId]); ++it) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1210:25: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam) [with TFile = _IO_FILE*; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 1210 | _writeAlignments(target, store, Sam(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1239:25: required from ‘void seqan::write(TFile&, FragmentStore&, Sam) [with TFile = _IO_FILE*; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 1239 | _writeAlignments(target, store, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:220:8: required from ‘int writeOutput(TFragmentStore&, const seqan::ConsensusOptions&) [with TFragmentStore = seqan::FragmentStore<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 220 | write(strmWrite, fragStore, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:308:22: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 308 | ret = writeOutput(fragStore, consOpt); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:147:15: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 147 | : data_container(other_.data_container), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:92: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:139:40: required from ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 139 | : data_container(_toPointer(container_)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: required from ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 541 | return TIterator(me, begin(me, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:600:17: required from ‘typename seqan::Iterator::Type>::Type seqan::begin(const T&) [with T = Segment >, InfixSegment>; typename Iterator::Type>::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 600 | return begin(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io.h:971:31: required from ‘int seqan::write(TFile&, FragmentStore&, Amos) [with TFile = _IO_FILE*; TSpec = void; TConfig = FragmentStoreConfig; Amos = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 971 | TSeqIter seqIt = begin(value(fragStore.readSeqStore, idCount)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:207:8: required from ‘int writeOutput(TFragmentStore&, const seqan::ConsensusOptions&) [with TFragmentStore = seqan::FragmentStore<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 207 | write(strmWrite, fragStore, Amos()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:308:22: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 308 | ret = writeOutput(fragStore, consOpt); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:600:17: required from ‘typename seqan::Iterator::Type>::Type seqan::begin(const T&) [with T = Segment >, InfixSegment>; typename Iterator::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 600 | return begin(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1013:50: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam, const TAlignFunctor&) [with TFile = _IO_FILE*; TSpec = void; TConfig = FragmentStoreConfig; TAlignFunctor = Nothing; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1013 | for (TReadNameIterator it = begin(store.readNameStore[readId]); it != end(store.readNameStore[readId]); ++it) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1210:25: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam) [with TFile = _IO_FILE*; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1210 | _writeAlignments(target, store, Sam(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1239:25: required from ‘void seqan::write(TFile&, FragmentStore&, Sam) [with TFile = _IO_FILE*; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1239 | _writeAlignments(target, store, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:220:8: required from ‘int writeOutput(TFragmentStore&, const seqan::ConsensusOptions&) [with TFragmentStore = seqan::FragmentStore<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 220 | write(strmWrite, fragStore, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:308:22: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 308 | ret = writeOutput(fragStore, consOpt); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 541 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_endDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:850:23: required from ‘typename seqan::Iterator >::Type seqan::end(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 850 | return _endDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:832:15: required from ‘typename seqan::Iterator::Type>::Type seqan::end(const T&) [with T = Segment >, InfixSegment>; typename Iterator::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 832 | return end(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1013:90: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam, const TAlignFunctor&) [with TFile = _IO_FILE*; TSpec = void; TConfig = FragmentStoreConfig; TAlignFunctor = Nothing; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1013 | for (TReadNameIterator it = begin(store.readNameStore[readId]); it != end(store.readNameStore[readId]); ++it) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1210:25: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam) [with TFile = _IO_FILE*; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1210 | _writeAlignments(target, store, Sam(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1239:25: required from ‘void seqan::write(TFile&, FragmentStore&, Sam) [with TFile = _IO_FILE*; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1239 | _writeAlignments(target, store, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:220:8: required from ‘int writeOutput(TFragmentStore&, const seqan::ConsensusOptions&) [with TFragmentStore = seqan::FragmentStore<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 220 | write(strmWrite, fragStore, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:308:22: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 308 | ret = writeOutput(fragStore, consOpt); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:777:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 777 | return TIterator(me, end(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:81: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h: In instantiation of ‘typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_base.h:297:17: required from ‘typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 297 | return value(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:221:19: required from ‘void seqan::getMDString(TMDString&, TGaps1&, TGaps2&) [with TMDString = String >; TGaps1 = Gaps >, AnchorGaps, Alloc<> > > >; TGaps2 = Gaps >, AnchorGaps, Alloc<> > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 221 | op = (*it1 == *it2)? 'M': 'R'; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:475:16: required from ‘void seqan::alignAndGetCigarString(TCigar&, TMDString&, TContig&, TReadSeq&, TAlignedRead&, TErrors&, const Nothing&) [with TCigar = String >; TMDString = String >; TContig = ContigStoreElement >, GapAnchor, void>; TReadSeq = String >; TErrors = int; TAlignedRead = AlignedReadStoreElement, void>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 475 | getMDString(md, contigGaps, readGaps); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1058:35: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam, const TAlignFunctor&) [with TFile = _IO_FILE*; TSpec = void; TConfig = FragmentStoreConfig; TAlignFunctor = Nothing; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1058 | alignAndGetCigarString(cigar, md, store.contigStore[(*it).contigId], readSeq, *it, errors, alignFunctor); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1210:25: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam) [with TFile = _IO_FILE*; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1210 | _writeAlignments(target, store, Sam(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1239:25: required from ‘void seqan::write(TFile&, FragmentStore&, Sam) [with TFile = _IO_FILE*; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1239 | _writeAlignments(target, store, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:220:8: required from ‘int writeOutput(TFragmentStore&, const seqan::ConsensusOptions&) [with TFragmentStore = seqan::FragmentStore<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 220 | write(strmWrite, fragStore, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:308:22: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 308 | ret = writeOutput(fragStore, consOpt); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:211:12: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 211 | return TProxy(it); | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_iterator.h:75: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: initializing argument 1 of ‘seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]’ 99 | Proxy(TIterator const _it) | ~~~~~~~~~~~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h: In instantiation of ‘seqan::Proxy >::Proxy(const seqan::Proxy >&) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_base.h:297:17: required from ‘typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 297 | return value(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:221:19: required from ‘void seqan::getMDString(TMDString&, TGaps1&, TGaps2&) [with TMDString = String >; TGaps1 = Gaps >, AnchorGaps, Alloc<> > > >; TGaps2 = Gaps >, AnchorGaps, Alloc<> > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 221 | op = (*it1 == *it2)? 'M': 'R'; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:475:16: required from ‘void seqan::alignAndGetCigarString(TCigar&, TMDString&, TContig&, TReadSeq&, TAlignedRead&, TErrors&, const Nothing&) [with TCigar = String >; TMDString = String >; TContig = ContigStoreElement >, GapAnchor, void>; TReadSeq = String >; TErrors = int; TAlignedRead = AlignedReadStoreElement, void>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 475 | getMDString(md, contigGaps, readGaps); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1058:35: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam, const TAlignFunctor&) [with TFile = _IO_FILE*; TSpec = void; TConfig = FragmentStoreConfig; TAlignFunctor = Nothing; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 1058 | alignAndGetCigarString(cigar, md, store.contigStore[(*it).contigId], readSeq, *it, errors, alignFunctor); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1210:25: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam) [with TFile = _IO_FILE*; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 1210 | _writeAlignments(target, store, Sam(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1239:25: required from ‘void seqan::write(TFile&, FragmentStore&, Sam) [with TFile = _IO_FILE*; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 1239 | _writeAlignments(target, store, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:220:8: required from ‘int writeOutput(TFragmentStore&, const seqan::ConsensusOptions&) [with TFragmentStore = seqan::FragmentStore<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 220 | write(strmWrite, fragStore, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:308:22: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 308 | ret = writeOutput(fragStore, consOpt); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:106:15: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 106 | : data_iterator(_other.data_iterator) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h: In instantiation of ‘seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps >, InfixSegment>, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1189:28: required from ‘typename seqan::Iterator >::Type seqan::iter(T&, TPos, Tag) [with T = Gaps >, InfixSegment>, AnchorGaps, Alloc<> > > >; TPos = long int; TTag = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1189 | return begin(me, tag_) + pos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1169:16: required from ‘typename seqan::Iterator::Type>::Type seqan::iter(T&, TPos) [with T = Gaps >, InfixSegment>, AnchorGaps, Alloc<> > > >; TPos = long int; typename Iterator::Type>::Type = Iter >, InfixSegment>, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1169 | return iter(me, pos, typename DefaultGetIteratorSpec::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_anchor.h:465:20: required from ‘void seqan::insertGaps(Gaps >&, TPosition, TCount) [with TSequence = Segment >, InfixSegment>; TGapAnchors = String, Alloc<> >; TPosition = long int; TCount = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 465 | TIter it = iter(gaps, clippedViewPos); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2801:19: required from ‘void seqan::convertPairWiseToGlobalAlignment(FragmentStore&, TContigGapsString&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigGapsString = StringSet, Alloc<> >, Owner > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 2801 | insertGaps(gaps, insPos - rBegin, blkLen); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:459:45: required from ‘void seqan::_readImpl(TStreamOrReader&, FragmentStore&, const TTag&, const FragStoreImportFlags&) [with TStreamOrReader = RecordReader, SinglePass >; TSpec = void; TConfig = FragmentStoreConfig; TTag = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 459 | convertPairWiseToGlobalAlignment(fragStore, contigAnchorGaps); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:474:18: required from ‘void seqan::read(TFile&, FragmentStore&, Sam, const FragStoreImportFlags&) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 474 | _readImpl(reader, fragStore, Sam(), importFlags); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:496:13: required from ‘void seqan::read(TFile&, FragmentStore&, Sam) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 496 | read(file, fragStore, Sam(), FragStoreImportFlags()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:184:7: required from ‘int loadFiles(TFragmentStore&, TSize&, const seqan::ConsensusOptions&) [with TFragmentStore = seqan::FragmentStore<>; TSize = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 184 | read(strmReads, fragStore, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:250:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 250 | int ret = loadFiles(fragStore, numberOfContigs, consOpt); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:742:58: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 742 | Iter > > result = lhs; | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:744:12: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 744 | return result; | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1477:56: required from ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String >; TValue = const seqan::SimpleType; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1477 | typename Size::Type new_length = reserve(me, me_length + 1, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TValue = SimpleType; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_realign.h:776:15: required from ‘void seqan::reAlign(FragmentStore&, TScore&, TId, TMethod, TBandwidth, bool) [with TSpec = void; TConfig = FragmentStoreConfig; TScore = Score >, Score > > >; TId = long unsigned int; TMethod = int; TBandwidth = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 776 | appendValue(contigEl.seq, (TAlphabet)value(itConsensus), Generous() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:263:12: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 263 | reAlign(fragStore, combinedScore, currentContig, consOpt.rmethod, consOpt.bandwidth, consOpt.include); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:139:40: required from ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 139 | : data_container(_toPointer(container_)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: required from ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 541 | return TIterator(me, begin(me, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:600:17: required from ‘typename seqan::Iterator::Type>::Type seqan::begin(const T&) [with T = Segment >, InfixSegment>; typename Iterator::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 600 | return begin(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1013:50: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam, const TAlignFunctor&) [with TFile = _IO_FILE*; TSpec = void; TConfig = FragmentStoreConfig; TAlignFunctor = Nothing; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1013 | for (TReadNameIterator it = begin(store.readNameStore[readId]); it != end(store.readNameStore[readId]); ++it) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1210:25: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam) [with TFile = _IO_FILE*; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1210 | _writeAlignments(target, store, Sam(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1239:25: required from ‘void seqan::write(TFile&, FragmentStore&, Sam) [with TFile = _IO_FILE*; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1239 | _writeAlignments(target, store, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:220:8: required from ‘int writeOutput(TFragmentStore&, const seqan::ConsensusOptions&) [with TFragmentStore = seqan::FragmentStore<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 220 | write(strmWrite, fragStore, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:308:22: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 308 | ret = writeOutput(fragStore, consOpt); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h: In instantiation of ‘seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:211:12: required from ‘typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 211 | return TProxy(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_base.h:297:17: required from ‘typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 297 | return value(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:221:19: required from ‘void seqan::getMDString(TMDString&, TGaps1&, TGaps2&) [with TMDString = String >; TGaps1 = Gaps >, AnchorGaps, Alloc<> > > >; TGaps2 = Gaps >, AnchorGaps, Alloc<> > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 221 | op = (*it1 == *it2)? 'M': 'R'; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:475:16: required from ‘void seqan::alignAndGetCigarString(TCigar&, TMDString&, TContig&, TReadSeq&, TAlignedRead&, TErrors&, const Nothing&) [with TCigar = String >; TMDString = String >; TContig = ContigStoreElement >, GapAnchor, void>; TReadSeq = String >; TErrors = int; TAlignedRead = AlignedReadStoreElement, void>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 475 | getMDString(md, contigGaps, readGaps); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1058:35: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam, const TAlignFunctor&) [with TFile = _IO_FILE*; TSpec = void; TConfig = FragmentStoreConfig; TAlignFunctor = Nothing; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1058 | alignAndGetCigarString(cigar, md, store.contigStore[(*it).contigId], readSeq, *it, errors, alignFunctor); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1210:25: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam) [with TFile = _IO_FILE*; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1210 | _writeAlignments(target, store, Sam(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1239:25: required from ‘void seqan::write(TFile&, FragmentStore&, Sam) [with TFile = _IO_FILE*; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1239 | _writeAlignments(target, store, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:220:8: required from ‘int writeOutput(TFragmentStore&, const seqan::ConsensusOptions&) [with TFragmentStore = seqan::FragmentStore<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 220 | write(strmWrite, fragStore, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:308:22: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 308 | ret = writeOutput(fragStore, consOpt); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:100:15: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 100 | : data_iterator(_it) | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1444:21: required from ‘void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1444 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1465:31: required from ‘void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1465 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:849:31: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 849 | arrayConstructMove(old_array, old_array + start, seq_array); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42: required from ‘void seqan::append(String&, const TSource&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1421 | AppendString_ >::append_(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_concat_direct.h:318:11: required from ‘void seqan::appendValue(StringSet > >&, const TString2&, Tag) [with TString = String >; TString2 = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 318 | append(me.concat, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:1396:13: required from ‘typename seqan::Size::TReadStore>::Type seqan::appendRead(FragmentStore&, const TRead&, TId) [with TSpec = void; TConfig = FragmentStoreConfig; TRead = String >; TId = unsigned int; typename Size::TReadStore>::Type = long unsigned int; typename FragmentStore::TReadStore = String, Alloc<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1396 | appendValue(me.readSeqStore, read, Generous()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_base.h:1545:14: required from ‘int seqan::_convertSimpleReadFile(TFile&, FragmentStore&, TFilePath&, bool) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig; TFilePath = const std::__cxx11::basic_string]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1545 | appendRead(fragStore, seq, fragId); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:166:29: required from ‘int loadFiles(TFragmentStore&, TSize&, const seqan::ConsensusOptions&) [with TFragmentStore = seqan::FragmentStore<>; TSize = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 166 | if (_convertSimpleReadFile(strmReads, fragStore, consOpt.readsfile, moveToFront) != 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:250:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 250 | int ret = loadFiles(fragStore, numberOfContigs, consOpt); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1589:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1589 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:606:19: required from ‘typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, InfixSegment>, Tag >; TValue = Segment, Alloc<> >, InfixSegment>; typename Value::Type = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 606 | valueConstruct(ret, data); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:735:42: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Segment, Alloc<> >, InfixSegment>; TValue2 = const Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 735 | me.data_value = _holderAllocateObject(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:1018:15: required from ‘void seqan::assignValue(Holder >&, const TSource&) [with TValue = Segment, Alloc<> >, InfixSegment>; TSource = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1018 | create(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:153:20: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2738:18: required from ‘void seqan::convertPairWiseToGlobalAlignment(FragmentStore&, TContigGapsString&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigGapsString = StringSet, Alloc<> >, Owner > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2738 | TContigGapsPW contigGapsPW(/*contigInfix, */gaps[(*it).id]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:459:45: required from ‘void seqan::_readImpl(TStreamOrReader&, FragmentStore&, const TTag&, const FragStoreImportFlags&) [with TStreamOrReader = RecordReader, SinglePass >; TSpec = void; TConfig = FragmentStoreConfig; TTag = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 459 | convertPairWiseToGlobalAlignment(fragStore, contigAnchorGaps); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:474:18: required from ‘void seqan::read(TFile&, FragmentStore&, Sam, const FragStoreImportFlags&) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 474 | _readImpl(reader, fragStore, Sam(), importFlags); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:496:13: required from ‘void seqan::read(TFile&, FragmentStore&, Sam) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 496 | read(file, fragStore, Sam(), FragStoreImportFlags()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:184:7: required from ‘int loadFiles(TFragmentStore&, TSize&, const seqan::ConsensusOptions&) [with TFragmentStore = seqan::FragmentStore<>; TSize = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 184 | read(strmReads, fragStore, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:250:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 250 | int ret = loadFiles(fragStore, numberOfContigs, consOpt); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Segment >, seqan::InfixSegment>*; TParam = seqan::Segment >, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Segment >, InfixSegment>*; TParam = Segment >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:606:19: required from ‘typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder >, InfixSegment>, Tag >; TValue = Segment >, InfixSegment>; typename Value::Type = Segment >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 606 | valueConstruct(ret, data); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:735:42: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Segment >, InfixSegment>; TValue2 = const Segment >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 735 | me.data_value = _holderAllocateObject(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:1018:15: required from ‘void seqan::assignValue(Holder >&, const TSource&) [with TValue = Segment >, InfixSegment>; TSource = Segment >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1018 | create(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:153:20: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2739:15: required from ‘void seqan::convertPairWiseToGlobalAlignment(FragmentStore&, TContigGapsString&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigGapsString = StringSet, Alloc<> >, Owner > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2739 | TReadGaps readGaps(store.readSeqStore[(*it).readId], (*it).gaps); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:459:45: required from ‘void seqan::_readImpl(TStreamOrReader&, FragmentStore&, const TTag&, const FragStoreImportFlags&) [with TStreamOrReader = RecordReader, SinglePass >; TSpec = void; TConfig = FragmentStoreConfig; TTag = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 459 | convertPairWiseToGlobalAlignment(fragStore, contigAnchorGaps); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:474:18: required from ‘void seqan::read(TFile&, FragmentStore&, Sam, const FragStoreImportFlags&) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 474 | _readImpl(reader, fragStore, Sam(), importFlags); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:496:13: required from ‘void seqan::read(TFile&, FragmentStore&, Sam) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 496 | read(file, fragStore, Sam(), FragStoreImportFlags()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:184:7: required from ‘int loadFiles(TFragmentStore&, TSize&, const seqan::ConsensusOptions&) [with TFragmentStore = seqan::FragmentStore<>; TSize = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 184 | read(strmReads, fragStore, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:250:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 250 | int ret = loadFiles(fragStore, numberOfContigs, consOpt); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveBackwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1641:30: required from ‘void seqan::arrayMoveBackward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1641 | _arrayMoveBackwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1213:26: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = SimpleType*; TSource1 = SimpleType*; TSource2 = SimpleType*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1213 | arrayMoveBackward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1660:14: required from ‘void seqan::_arrayClearSpacePointer(TValue*, size_t, size_t, size_t, const True&) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1660 | arrayMove(array_begin + keep_from, array_begin + array_length, array_begin + move_to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1681:28: required from ‘void seqan::arrayClearSpace(TValue*, size_t, size_t, size_t) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1681 | _arrayClearSpacePointer(array_begin, array_length, keep_from, move_to, typename IsSimple::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:856:28: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 856 | arrayClearSpace(seq_array + start, old_length - start, removed_size, size); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42: required from ‘void seqan::append(String&, const TSource&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1421 | AppendString_ >::append_(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_concat_direct.h:318:11: required from ‘void seqan::appendValue(StringSet > >&, const TString2&, Tag) [with TString = String >; TString2 = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 318 | append(me.concat, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:1396:13: required from ‘typename seqan::Size::TReadStore>::Type seqan::appendRead(FragmentStore&, const TRead&, TId) [with TSpec = void; TConfig = FragmentStoreConfig; TRead = String >; TId = unsigned int; typename Size::TReadStore>::Type = long unsigned int; typename FragmentStore::TReadStore = String, Alloc<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1396 | appendValue(me.readSeqStore, read, Generous()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_base.h:1545:14: required from ‘int seqan::_convertSimpleReadFile(TFile&, FragmentStore&, TFilePath&, bool) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig; TFilePath = const std::__cxx11::basic_string]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1545 | appendRead(fragStore, seq, fragId); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:166:29: required from ‘int loadFiles(TFragmentStore&, TSize&, const seqan::ConsensusOptions&) [with TFragmentStore = seqan::FragmentStore<>; TSize = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 166 | if (_convertSimpleReadFile(strmReads, fragStore, consOpt.readsfile, moveToFront) != 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons/seqcons.cpp:250:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 250 | int ret = loadFiles(fragStore, numberOfContigs, consOpt); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1621:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1621 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:56, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h: In function ‘unsigned int seqan::cigarToGapAnchorRead(const TCigarString&, TGaps&) [with TCigarString = String >; TGaps = Gaps >, InfixSegment>, AnchorGaps, Alloc<> > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:534:27: warning: this statement may fall through [-Wimplicit-fallthrough=] 534 | insertGaps(it, cigar[i].count); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:535:13: note: here 535 | case 'I': | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h: In function ‘unsigned int seqan::cigarToGapAnchorRead(const TCigarString&, TGaps&) [with TCigarString = String >; TGaps = Gaps, Alloc<> > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:534:27: warning: this statement may fall through [-Wimplicit-fallthrough=] 534 | insertGaps(it, cigar[i].count); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:535:13: note: here 535 | case 'I': | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h: In function ‘unsigned int seqan::cigarToGapAnchorContig(const TCigarString&, TGaps&) [with TCigarString = String >; TGaps = Gaps, Alloc<> > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:564:27: warning: this statement may fall through [-Wimplicit-fallthrough=] 564 | insertGaps(it, cigar[i].count); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:565:13: note: here 565 | case 'D': | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ In function ‘seqan::allocate >, double, unsigned long, seqan::AllocateStorage_>(seqan::String >&, double*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage(seqan::String >&, unsigned long)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, unsigned long>(seqan::String >&, unsigned long)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, unsigned long>(seqan::String >&, unsigned long, seqan::Tag)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::reserve >, unsigned long>(seqan::String >&, unsigned long const&)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2091:19, inlined from ‘seqan::upgmaTree, double, seqan::Tag, seqan::Tag >(seqan::Graph > >&, seqan::Graph > >&, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_guidetree.h:854:9, inlined from ‘seqan::upgmaTree > >, double, seqan::Tag >(seqan::Graph > >&, seqan::Graph > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_guidetree.h:965:11, inlined from ‘seqan::consensusAlignment, seqan::Alloc >, seqan::Dependent > >, void, seqan::Tag const, unsigned long, seqan::ConsensusOptions>(seqan::Graph, seqan::Alloc >, seqan::Dependent > >, void, seqan::Tag const> >&, seqan::String, seqan::Alloc >&, seqan::ConsensusOptions const&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_base.h:570:11: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551600’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘seqan::consensusAlignment, seqan::Alloc >, seqan::Dependent > >, void, seqan::Tag const, unsigned long, seqan::ConsensusOptions>(seqan::Graph, seqan::Alloc >, seqan::Dependent > >, void, seqan::Tag const> >&, seqan::String, seqan::Alloc >&, seqan::ConsensusOptions const&)void’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ [ 27%] Linking CXX executable ../../../bin/seqcons cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/seqcons && /usr/bin/cmake -E cmake_link_script CMakeFiles/seqcons.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/seqcons.dir/seqcons.cpp.o -o ../../../bin/seqcons -lrt In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2091:19, inlined from ‘upgmaTree’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_guidetree.h:854:9, inlined from ‘upgmaTree’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_guidetree.h:965:11, inlined from ‘consensusAlignment’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_base.h:570:11: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551600’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘consensusAlignment’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 27%] Built target seqcons make -f core/apps/snp_store/CMakeFiles/snp_store.dir/build.make core/apps/snp_store/CMakeFiles/snp_store.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/snp_store /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/snp_store/CMakeFiles/snp_store.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f core/apps/snp_store/CMakeFiles/snp_store.dir/build.make core/apps/snp_store/CMakeFiles/snp_store.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 27%] Building CXX object core/apps/snp_store/CMakeFiles/snp_store.dir/snp_store.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/snp_store && /usr/bin/g++ -DSEQAN_DATE=\"\" -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT core/apps/snp_store/CMakeFiles/snp_store.dir/snp_store.cpp.o -MF CMakeFiles/snp_store.dir/snp_store.cpp.o.d -o CMakeFiles/snp_store.dir/snp_store.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.cpp:32: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:51, from /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.cpp:31: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.cpp:33: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60, from /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.cpp:34: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa.h:44, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus.h:43, from /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.cpp:35: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_base.h:343:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 343 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa.h:48: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_guidetree.h: In function ‘void seqan::njTree(const String&, Graph >&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_guidetree.h:148:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 148 | for (unsigned i = 0; i < length(mat); ++i) | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_guidetree.h:152:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 152 | String<__int64> av; // Average branch length to a combined node | ^~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa.h:49: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h: In function ‘void seqan::read(TFile&, StringSet&, TNames&, FastaAlign)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:416:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 416 | if (atEnd(reader)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:420:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 420 | TString seq; | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h: In function ‘void seqan::read(TFile&, String&, String&, const TNames&, FastaAlign)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:534:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 534 | if (atEnd(reader)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:538:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 538 | String mat; | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h: In function ‘void seqan::read(TFile&, String&, String&, const TStringSet&, const TNames&, MummerLib)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:878:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 878 | if (atEnd(reader)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:880:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 880 | TName seq1; | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h: In function ‘void seqan::read(TFile&, Graph >&, TNames&, NewickFormat)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:985:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 985 | if (atEnd(reader)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:988:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 988 | TVertexDescriptor lastVertex = nilVertex; | ^~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus.h:48: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_base.h: In function ‘void seqan::getGappedConsensus(FragmentStore&, TGappedConsensus&, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_base.h:387:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 387 | for(int i = 0; i < ((int) itGaps->gapPos - (int) itGaps->seqPos) - diff; ++i) | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_base.h:389:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 389 | diff = (itGaps->gapPos - itGaps->seqPos); | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus.h:51: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_library.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_library.h:91:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 91 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_library.h:102:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 102 | public ::std::unary_function >, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.cpp:53: /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.h:356:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 356 | public ::std::binary_function < typename Value::Type, typename Value::Type, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.h:405:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 405 | struct LessPosLen : public ::std::binary_function < TPosLen, TPosLen, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.h:420:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 420 | public ::std::binary_function < typename Value::Type, typename Value::Type, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.h:468:35: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 468 | struct LessId : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.h:481:37: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 481 | struct LessGPos : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.h:504:40: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 504 | struct LessGPosEnd : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.h:523:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 523 | struct LessGPosEndOa : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.h:545:36: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 545 | struct HigherQ : public ::std::binary_function < TQual, TQual, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:71: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_base.h: In instantiation of ‘seqan::Pair::Pair(const T1&, const T2&) [with T1 = unsigned int; T2 = seqan::Segment >, seqan::InfixSegment>; TSpec = void]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.h:5235:46: required from ‘void seqan::dumpShortIndelPolymorphismsBatch(TFragmentStore&, TReadCigars&, TGenome&, TGenomeName, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, TFile&, TOptions&) [with TFragmentStore = FragmentStore; TReadCigars = StringSet > >; TGenome = String >; TGenomeName = String >; TFile = std::basic_ofstream; TOptions = SNPCallingOptions<>; typename TFragmentStore::TContigPos = long int]’ /usr/include/c++/14/bits/stl_function.h:131:12: note: 5235 | Pair(1,rInf))); /usr/include/c++/14/bits/stl_function.h:131:12: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.cpp:997:74: required from ‘int detectSNPs(seqan::SNPCallingOptions&) [with TSpec = seqan::SNPCallingSpec<>]’ /usr/include/c++/14/bits/stl_function.h:131:12: note: 997 | if(!options.realign) dumpShortIndelPolymorphismsBatch(fragmentStore, readCigars, fragmentStore.contigStore[0].seq, genomeNames[i], startCoord, currentWindowBegin, currentWindowEnd, indelFileStream, options); /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.cpp:1442:28: required from here /usr/include/c++/14/bits/stl_function.h:131:12: note: 1442 | int result = detectSNPs(options); /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_base.h:143:53: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 143 | Pair(T1 const & _i1, T2 const & _i2) : i1(_i1), i2(_i2) {} | ^~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:93: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:81: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h: In instantiation of ‘seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1189:28: required from ‘typename seqan::Iterator >::Type seqan::iter(T&, TPos, Tag) [with T = Gaps >, AnchorGaps, Alloc<> > > >; TPos = long int; TTag = Rooted_; typename Iterator >::Type = Iter >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1189 | return begin(me, tag_) + pos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1169:16: required from ‘typename seqan::Iterator::Type>::Type seqan::iter(T&, TPos) [with T = Gaps >, AnchorGaps, Alloc<> > > >; TPos = long int; typename Iterator::Type>::Type = Iter >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1169 | return iter(me, pos, typename DefaultGetIteratorSpec::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.h:4144:36: required from ‘void seqan::dumpVariantsRealignBatch(TFragmentStore&, TReadCigars&, const TReadCounts&, TGenomeName, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, TFile&, TFile&, TOptions&) [with TFragmentStore = FragmentStore; TReadCounts = String >; TReadCigars = StringSet > >; TGenomeName = String >; TFile = std::basic_ofstream; TOptions = SNPCallingOptions<>; typename TFragmentStore::TContigPos = long int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 4144 | TContigGapIter refIt = iter(referenceGaps,candidateViewPos-refStart); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.h:2564:41: required from ‘void seqan::dumpVariantsRealignBatchWrap(TFragmentStore&, TReadCigars&, const TReadCounts&, TGenomeName, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, TFile&, TFile&, TOptions&) [with TFragmentStore = FragmentStore; TReadCigars = StringSet > >; TReadCounts = String >; TGenomeName = String >; TFile = std::basic_ofstream; TOptions = SNPCallingOptions<>; typename TFragmentStore::TContigPos = long int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2564 | dumpVariantsRealignBatch(fragStoreGroup,readCigars, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ 2565 | readCounts,genomeID, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~ 2566 | groupStartCoord,groupStartPos,groupEndPos, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2567 | fileSNPs,fileIndels,options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.cpp:1012:53: required from ‘int detectSNPs(seqan::SNPCallingOptions&) [with TSpec = seqan::SNPCallingSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1012 | dumpVariantsRealignBatchWrap(fragmentStore, readCigars, readCounts, genomeNames[i], startCoord, currentWindowBegin, currentWindowEnd, snpFileStream,indelFileStream,options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.cpp:1442:28: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1442 | int result = detectSNPs(options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:742:58: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 742 | Iter > > result = lhs; | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:744:12: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 744 | return result; | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h: In instantiation of ‘seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = const Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1200:28: required from ‘typename seqan::Iterator >::Type seqan::iter(const T&, TPos, Tag) [with T = Gaps >, AnchorGaps, Alloc<> > > >; TPos = long int; TTag = Rooted_; typename Iterator >::Type = Iter >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1200 | return begin(me, tag_) + pos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1178:16: required from ‘typename seqan::Iterator::Type>::Type seqan::iter(const T&, TPos) [with T = Gaps >, AnchorGaps, Alloc<> > > >; TPos = long int; typename Iterator::Type>::Type = Iter >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1178 | return iter(me, pos, typename DefaultGetIteratorSpec::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_anchor.h:450:22: required from ‘bool seqan::isGap(const Gaps >&, TPosition) [with TSequence = String >; TGapAnchors = String, Alloc<> >; TPosition = long int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 450 | return isGap(iter(gaps, clippedViewPos)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.h:4505:72: required from ‘void seqan::dumpVariantsRealignBatch(TFragmentStore&, TReadCigars&, const TReadCounts&, TGenomeName, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, TFile&, TFile&, TOptions&) [with TFragmentStore = FragmentStore; TReadCounts = String >; TReadCigars = StringSet > >; TGenomeName = String >; TFile = std::basic_ofstream; TOptions = SNPCallingOptions<>; typename TFragmentStore::TContigPos = long int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 4505 | ((indelConsens[candidateViewPos].i1 & 7) == 6 && isGap(referenceGaps, candidateViewPos-refStart))) // position in consensus is the same as in reference /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.h:2564:41: required from ‘void seqan::dumpVariantsRealignBatchWrap(TFragmentStore&, TReadCigars&, const TReadCounts&, TGenomeName, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, TFile&, TFile&, TOptions&) [with TFragmentStore = FragmentStore; TReadCigars = StringSet > >; TReadCounts = String >; TGenomeName = String >; TFile = std::basic_ofstream; TOptions = SNPCallingOptions<>; typename TFragmentStore::TContigPos = long int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 2564 | dumpVariantsRealignBatch(fragStoreGroup,readCigars, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ 2565 | readCounts,genomeID, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~ 2566 | groupStartCoord,groupStartPos,groupEndPos, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2567 | fileSNPs,fileIndels,options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.cpp:1012:53: required from ‘int detectSNPs(seqan::SNPCallingOptions&) [with TSpec = seqan::SNPCallingSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1012 | dumpVariantsRealignBatchWrap(fragmentStore, readCigars, readCounts, genomeNames[i], startCoord, currentWindowBegin, currentWindowEnd, snpFileStream,indelFileStream,options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.cpp:1442:28: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1442 | int result = detectSNPs(options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:742:58: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 742 | Iter > > result = lhs; | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = const seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:744:12: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 744 | return result; | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = const seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/stream/tokenize.h:943:12: required from ‘int seqan::readNChars(TBuffer&, RecordReader&, unsigned int) [with TBuffer = String >; TStream = std::basic_fstream; TPass = SinglePass]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 943 | reserve(buffer, n, Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.h:1004:39: required from ‘int seqan::readMatchesFromGFF_Batch(TFile&, TFragmentStore&, TReadCounts&, String >&, StringSet&, TGenome&, TGenomeIdMap&, TSize, TContigPos, TContigPos, TValue&, TOptions&, bool) [with TFile = std::basic_fstream*; TFragmentStore = FragmentStore; TReadCounts = String >; TCigarStr = String >; TGenome = String >; TGenomeIdMap = std::map >, unsigned int>; TContigPos = long int; TSize = unsigned int; TValue = int; TOptions = SNPCallingOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1004 | if (readNChars(curr_read, reader, 1) != 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.cpp:903:54: required from ‘int detectSNPs(seqan::SNPCallingOptions&) [with TSpec = seqan::SNPCallingSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 903 | result = readMatchesFromGFF_Batch(readFileStreams[j], fragmentStore, readCounts, readClips, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 904 | readCigars, genomes[i], gIdStringToIdNumMap, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 905 | i, currentWindowBegin, currentWindowEnd, highestChrId[j], options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.cpp:1442:28: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1442 | int result = detectSNPs(options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:131:16: required from ‘seqan::String >::String(const seqan::String >&) [with TValue = seqan::SimpleType; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 131 | reserve(*this, std::min(capacity(source), computeGenerousCapacity(source, length(source))), Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.h:4809:28: required from ‘void seqan::dumpSNPsBatch(TFragmentStore&, TReadCigars&, const TReadCounts&, TGenomeName, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, TFile&, TOptions&) [with TFragmentStore = FragmentStore; TReadCigars = StringSet > >; TReadCounts = String >; TGenomeName = String >; TFile = std::basic_ofstream; TOptions = SNPCallingOptions<>; typename TFragmentStore::TContigPos = long int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 4809 | Dna5String gInf = infix(genome, currentBegin, currentEnd); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.cpp:1014:38: required from ‘int detectSNPs(seqan::SNPCallingOptions&) [with TSpec = seqan::SNPCallingSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1014 | dumpSNPsBatch(fragmentStore, readCigars, readCounts, genomeNames[i], startCoord, currentWindowBegin, currentWindowEnd, snpFileStream,options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.cpp:1442:28: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1442 | int result = detectSNPs(options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:51: In function ‘std::__copy_move::__copy_m(char const*, char const*, char*)char*’, inlined from ‘std::__copy_move_a2(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:507:30, inlined from ‘std::__copy_move_a1(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:534:42, inlined from ‘std::__copy_move_a(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:541:31, inlined from ‘std::copy(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:637:7, inlined from ‘seqan::_arrayCopyForwardDefault(char const*, char const*, char*)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:855:16, inlined from ‘seqan::arrayCopyForward(char const*, char const*, char*)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:865:29, inlined from ‘seqan::_arrayConstructCopyPointer(char const*, char const*, char*, seqan::True)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21, inlined from ‘seqan::arrayConstructCopy(char const*, char const*, char*)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31, inlined from ‘seqan::AppendString_ >::append_ >, char const>(seqan::String >&, char const&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1368:31, inlined from ‘seqan::append, char, seqan::TagGenerous_>(seqan::String >&, char const&, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42, inlined from ‘seqan::append >, char>(seqan::String >&, char const&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1626:11, inlined from ‘seqan::readMatchesFromGFF_Batch >*, seqan::FragmentStore >, seqan::String >, seqan::String, seqan::Alloc >, seqan::String, seqan::Alloc >, std::map >, unsigned int, std::less > >, std::allocator > const, unsigned int> > >, long, unsigned int, int, seqan::SNPCallingOptions > >(std::basic_fstream >*&, seqan::FragmentStore >&, seqan::String >&, seqan::String, seqan::Alloc >&, seqan::StringSet, seqan::Alloc >, seqan::Owner > >&, seqan::String, seqan::Alloc >&, std::map >, unsigned int, std::less > >, std::allocator > const, unsigned int> > >&, unsigned int, long, long, int&, seqan::SNPCallingOptions >&, bool)int [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.h:1082:39: /usr/include/c++/14/bits/stl_algobase.h:438:30: warning: ‘memmove’ forming offset 1 is out of the bounds [0, 1] of object ‘’ with type ‘const char’ [-Warray-bounds=] 438 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.h: In function ‘seqan::readMatchesFromGFF_Batch >*, seqan::FragmentStore >, seqan::String >, seqan::String, seqan::Alloc >, seqan::String, seqan::Alloc >, std::map >, unsigned int, std::less > >, std::allocator > const, unsigned int> > >, long, unsigned int, int, seqan::SNPCallingOptions > >(std::basic_fstream >*&, seqan::FragmentStore >&, seqan::String >&, seqan::String, seqan::Alloc >&, seqan::StringSet, seqan::Alloc >, seqan::Owner > >&, seqan::String, seqan::Alloc >&, std::map >, unsigned int, std::less > >, std::allocator > const, unsigned int> > >&, unsigned int, long, long, int&, seqan::SNPCallingOptions >&, bool)int [clone .isra.0]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store/snp_store.h:1082:39: note: ‘’ declared here 1082 | append(temp_read,'A'); // will be replaced with correct base in "mutations" loop | ~~~~~~^~~~~~~~~~~~~~~ [ 29%] Linking CXX executable ../../../bin/snp_store cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/snp_store && /usr/bin/cmake -E cmake_link_script CMakeFiles/snp_store.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/snp_store.dir/snp_store.cpp.o -o ../../../bin/snp_store -lrt -L/usr/lib64 -lz In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘obtainId’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_idmanager.h:205:9, inlined from ‘addVertex’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:534:33, inlined from ‘_createVertices’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_interface.h:709:65, inlined from ‘_copyGraph’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:191:50, inlined from ‘_copyGraph’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:213:12, inlined from ‘__ct ’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:110:14, inlined from ‘__ct_base ’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:488:7: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551608’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘__ct_base ’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘obtainId’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_idmanager.h:205:9, inlined from ‘addVertex’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:534:33, inlined from ‘_createVertices’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_interface.h:709:65, inlined from ‘_copyGraph’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:192:24, inlined from ‘_copyGraph’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:213:12, inlined from ‘__ct ’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:110:14, inlined from ‘__ct_base ’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:488:7: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551608’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘__ct_base ’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 29%] Built target snp_store make -f core/apps/splazers/CMakeFiles/splazers.dir/build.make core/apps/splazers/CMakeFiles/splazers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/splazers /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/splazers/CMakeFiles/splazers.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f core/apps/splazers/CMakeFiles/splazers.dir/build.make core/apps/splazers/CMakeFiles/splazers.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 29%] Building CXX object core/apps/splazers/CMakeFiles/splazers.dir/splazers.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/splazers && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT core/apps/splazers/CMakeFiles/splazers.dir/splazers.cpp.o -MF CMakeFiles/splazers.dir/splazers.cpp.o.d -o CMakeFiles/splazers.dir/splazers.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:45, from /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:49: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:44: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:28, from /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:50: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:62, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:40, from /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:29: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:45:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:54:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:63:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 63 | struct filterI3 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:401:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 401 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:507:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 507 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:78: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:42:48: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public ::std::binary_function < PageBucket, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:57:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:257:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 257 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:372:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 372 | struct insertBucket : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_set.h:373:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:404:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 404 | public::std::binary_function // functor for operator> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:744:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 744 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:760:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 760 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:80: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:854:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 854 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:902:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 902 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:970:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 970 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1039:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1039 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1073:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1073 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1121:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1121 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2093:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2093 | struct _qgramComp : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2112:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2112 | public ::std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:46:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 46 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:85:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 85 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:96: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:98:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 98 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:112:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 112 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:127:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:144:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:154:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:99: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:110:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 110 | public ::std::binary_function < SkewDCStream, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:143:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 143 | public ::std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:100: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:99:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 99 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:118:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:132:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 132 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:154:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:175:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 175 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:185:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 185 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:103: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:57:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:97:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 97 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:141:29: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:109: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:59:42: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:164:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, KasaiOriginal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:312:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 312 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:313:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 313 | LCP[isa - 1] = h; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:379:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 379 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:380:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 380 | LCP[i] = h | mark; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const StringSet&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:483:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 483 | for(TSize hMax = _min(getValueI2((TPair)dec), n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:484:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 484 | LCP[i] = h | mark; | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:113: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h:144:50: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:585:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 585 | public ::std::binary_function< Pair, Pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:128: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In function ‘void seqan::_storeWotdChildren(Index > >&, TSize, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:504:27: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 504 | } else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:506:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 506 | for (TDirSize d = index.sentinelBound - index.sentinelOcc; d != index.sentinelBound; ++d) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:136: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h:149:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 149 | struct RepeatLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:157: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h: In function ‘typename seqan::Iterator >::Type seqan::_upperBoundLcpe(TText&, TSA&, SearchTreeIterator, TQuery&, TDiff_, TDiff_)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1498:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1498 | for(; i && ordEqual(*t, convert(*q)); --i, ++t, ++q) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1501 | if (q == qEnd || t == tEnd || !ordGreater(*t, convert(*q))) { | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/fai_index.h:40, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:83, from /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:712:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 712 | struct LessRNoGPos : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:740:47: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 740 | struct LessRNoGEndPos : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:766:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 766 | struct LessErrors : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:784:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 784 | struct LessSplicedScore : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:806:45: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 806 | struct LessSplicedScoreGPos : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:51: /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/outputFormat.h:126:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 126 | struct LessGPosRNo : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:52: /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/paramChooser.h: In function ‘int seqan::qualityDistributionFromPrbFile(TFile&, TDistribution&, ParamChooserOptions&)’: /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/paramChooser.h:198:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 198 | if (skipWhitespaces(reader) != 0) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/paramChooser.h:201:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 201 | int kickout = 0; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/paramChooser.h: In function ‘int seqan::qualityDistributionFromFastQIntFile(TFile&, TDistribution&, ParamChooserOptions&)’: /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/paramChooser.h:373:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 373 | if (pm_options.verbose) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/paramChooser.h:376:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 376 | resize(avg,pm_options.totalN,(TFloat)0.0); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/paramChooser.h: In function ‘bool seqan::parseGappedParams(RazerSOptions&, TFile&, ParamChooserOptions&)’: /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/paramChooser.h:934:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 934 | if (value(reader) == 'e') | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/paramChooser.h:938:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 938 | bool atLeastOneFound = false; | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:59: /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:525:47: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | struct LessPairErrors : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp: In function ‘int main(int, const char**)’: /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:564:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 564 | for (unsigned i = 0; i < length(readFileNames); ++i) | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:567:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 567 | if(length(readFileNames) == 2) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:615:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 615 | if ((getArgumentValueCount(parser, 1) == 0) && (stop = true)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:617:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 617 | if ((options.minClippedLen < 0) && (stop = true)) | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h: In instantiation of ‘seqan::ModifiedString::ModifiedString(THost_&&, typename seqan::EnableIf::Type, typename seqan::RemoveReference::Type> >::Type*) [with THost_ = const seqan::Segment >, seqan::InfixSegment>&; THost = seqan::ModifiedString >, seqan::InfixSegment>, seqan::ModView > > >; TSpec = seqan::Tag; typename seqan::EnableIf::Type, typename seqan::RemoveReference::Type> >::Type = void; typename seqan::RemoveReference::Type = seqan::ModifiedString >, seqan::InfixSegment>, seqan::ModView > > >; typename seqan::RemoveReference::Type = const seqan::Segment >, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_shortcuts.h:584:9: required from ‘typename seqan::ReverseComplementString::Type seqan::reverseComplementString(const THost&) [with THost = Segment >, InfixSegment>; typename ReverseComplementString::Type = ModifiedString >, InfixSegment>, ModView > > >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:617:9: note: 584 | return TRevComp(host); /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:617:9: note: | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/outputFormat.h:1589:40: required from ‘void seqan::dumpMatches(TMatches&, const TGenomeNames&, StringSet > >&, std::map, unsigned int> >&, const TReads&, const TReadRegions&, TCounts&, const TReadNames&, CharString, CharString, RazerSOptions&) [with TMatches = String >; TGenomeNames = StringSet > >; TReads = StringSet >, Owner > >; TReadRegions = String > > >; TReadNames = StringSet > >; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:617:9: note: 1589 | file << reverseComplementString(reads[currReadNo]) << "\t*\t"; /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:617:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:305:14: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:617:9: note: 305 | dumpMatches(matches, genomeNames, genomeFileNames, gnoToFileMap, readSet, readRegions, stats, readNames, readFileNames[0], errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:617:9: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:617:9: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:617:9: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:161:13: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 161 | _host(std::forward(host)) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:93, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:69: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:165:53: note: initializing argument 1 of ‘seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment >, seqan::InfixSegment>; TFunctor = seqan::FunctorComplement >; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 165 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:62: /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h: In instantiation of ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal, TSufPrefSpec) [with TMatch = ReadMatch; TGenome = String >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, InfixSegment>, Myers >, Alloc<> >; TSpec = RazerSSpec<>; TSufPrefSpec = LongestSuffix; SwiftSemiGlobal = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2570:21: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:165:53: note: 2570 | if (!matchVerify(mR, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:165:53: note: | ~~~~~~~~~~~^~~~ 2571 | infix(genome,minBeginPos,endPosition(infix(swiftFinderR, genomeInf))), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:165:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2572 | rseqNo, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:165:53: note: | ~~~~~~~ 2573 | readSet,//readSetR, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:165:53: note: | ~~~~~~~~~~~~~~~~~~~ 2574 | forwardPatternsR, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:165:53: note: | ~~~~~~~~~~~~~~~~~ 2575 | options, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:165:53: note: | ~~~~~~~~ 2576 | TSwiftSpec(), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:165:53: note: | ~~~~~~~~~~~~~ 2577 | LongestSuffix())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:165:53: note: | ~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, UngappedShape<0> >; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:165:53: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:165:53: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3099:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:165:53: note: 3099 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, ungappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:165:53: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:165:53: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:165:53: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:165:53: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:165:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:165:53: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:165:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:684:22: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 684 | TGenomeInfix oriInf = inf; | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:692:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 692 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h: In instantiation of ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal, TSufPrefSpec) [with TMatch = ReadMatch; TGenome = String >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, InfixSegment>, Myers >, Alloc<> >; TSpec = RazerSSpec<>; TSufPrefSpec = LongestPrefix; SwiftSemiGlobal = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2618:20: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 2618 | if (matchVerify( (*it).i2, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~^~~~~~~~~~~ 2619 | infix(genome, (*it).i2.gBegin, maxEndPos), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2620 | rseqNo, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~ 2621 | readSet, //readSetL /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~ 2622 | forwardPatternsL, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~ 2623 | options, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~ 2624 | TSwiftSpec(), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~ 2625 | LongestPrefix()) && /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, UngappedShape<0> >; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3099:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3099 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, ungappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:684:22: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 684 | TGenomeInfix oriInf = inf; | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:692:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 692 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h: In instantiation of ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal) [with TMatch = ReadMatch; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, Myers > >; TSpec = RazerSSpec<>; SwiftSemiGlobal = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:775:21: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 775 | if (matchVerify( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~^ 776 | (*it).i2, infix(genome, (*it).i2.gBegin, (*it).i2.gEnd), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 777 | rseqNo, readSetL, forwardPatternsL, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 778 | options, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:1046:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1046 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2180:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 2180 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2253:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 2253 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:1466:33: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1466 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h: In instantiation of ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal) [with TMatch = ReadMatch; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, InfixSegment>, Myers >, Alloc<> >; TSpec = RazerSSpec<>; SwiftSemiGlobal = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:1694:15: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1694 | matchVerify(m, infix(swiftFinder), rseqNo, readSet, forwardPatterns, options, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2036:19: required from ‘int seqan::mapSingleReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 2036 | mapSingleReads(matches, genome, gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2183:24: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 2183 | return mapSingleReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2253:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 2253 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:1466:33: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1466 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:92: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:166:25: required from ‘seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment >, seqan::InfixSegment>; TFunctor = seqan::FunctorComplement >; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 166 | _host(_toPointer(host)), tmp_value() /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:161:13: required from ‘seqan::ModifiedString::ModifiedString(THost_&&, typename seqan::EnableIf::Type, typename seqan::RemoveReference::Type> >::Type*) [with THost_ = const seqan::Segment >, seqan::InfixSegment>&; THost = seqan::ModifiedString >, seqan::InfixSegment>, seqan::ModView > > >; TSpec = seqan::Tag; typename seqan::EnableIf::Type, typename seqan::RemoveReference::Type> >::Type = void; typename seqan::RemoveReference::Type = seqan::ModifiedString >, seqan::InfixSegment>, seqan::ModView > > >; typename seqan::RemoveReference::Type = const seqan::Segment >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 161 | _host(std::forward(host)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_shortcuts.h:584:9: required from ‘typename seqan::ReverseComplementString::Type seqan::reverseComplementString(const THost&) [with THost = Segment >, InfixSegment>; typename ReverseComplementString::Type = ModifiedString >, InfixSegment>, ModView > > >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 584 | return TRevComp(host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/outputFormat.h:1589:40: required from ‘void seqan::dumpMatches(TMatches&, const TGenomeNames&, StringSet > >&, std::map, unsigned int> >&, const TReads&, const TReadRegions&, TCounts&, const TReadNames&, CharString, CharString, RazerSOptions&) [with TMatches = String >; TGenomeNames = StringSet > >; TReads = StringSet >, Owner > >; TReadRegions = String > > >; TReadNames = StringSet > >; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1589 | file << reverseComplementString(reads[currReadNo]) << "\t*\t"; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:305:14: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 305 | dumpMatches(matches, genomeNames, genomeFileNames, gnoToFileMap, readSet, readRegions, stats, readNames, readFileNames[0], errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_iterator.h:65, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:86: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:375:13: required from ‘seqan::Finder >::Finder(THaystack&, TRepeatSize, TPeriodSize) [with TRepeatSize = int; TPeriodSize = int; THaystack = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 375 | data_iterator(begin(haystack, Rooted())), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2446:16: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2446 | TSwiftFinderL swiftFinderL(genomeInf, options.repeatLength, 1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, UngappedShape<0> >; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3066:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3066 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, ungappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:147:15: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 147 | : data_container(other_.data_container), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:375:13: required from ‘seqan::Finder >::Finder(THaystack&, TRepeatSize, TPeriodSize) [with TRepeatSize = int; TPeriodSize = int; THaystack = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 375 | data_iterator(begin(haystack, Rooted())), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:683:16: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 683 | TSwiftFinderR swiftFinderR(genomeInf, options.repeatLength, 1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:1046:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1046 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2180:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2180 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2242:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2242 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:147:15: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 147 | : data_container(other_.data_container), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:516:9: required from ‘bool seqan::loadReads(TReadSet&, TNameSet&, const char*, const char*, TRazerSOptions&) [with TReadSet = StringSet >, Owner > >; TNameSet = StringSet > >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 516 | reserve(reads.concat, length(reads.concat), Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:204:17: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 204 | if (!loadReads(readSet, readNames, toCString(readFileNames[0]), toCString(readFileNames[1]), options)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:616:25: required from ‘typename seqan::Iterator >::Type seqan::begin(T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 616 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:375:32: required from ‘seqan::Finder >::Finder(THaystack&, TRepeatSize, TPeriodSize) [with TRepeatSize = int; TPeriodSize = int; THaystack = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 375 | data_iterator(begin(haystack, Rooted())), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2446:16: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2446 | TSwiftFinderL swiftFinderL(genomeInf, options.repeatLength, 1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, UngappedShape<0> >; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3066:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 3066 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, ungappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:532:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 532 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:52: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::container(Finder&) [with THaystack = Segment >, InfixSegment>; TSpec = Swift > >; typename Parameter_::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1875:77: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment >, InfixSegment>; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1875 | pattern.finderLength = pattern.params.tabooLength + length(container(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder >, InfixSegment>, Swift > > >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2481:13: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2481 | while (find(swiftFinderR, swiftPatternR, maxErrorRateR)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, UngappedShape<0> >; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3066:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 3066 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, ungappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:793:42: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 793 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:162: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment >, InfixSegment>; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1876 | _patternInit(pattern, errorRate, minLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder >, InfixSegment>, Swift > > >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2481:13: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2481 | while (find(swiftFinderR, swiftPatternR, maxErrorRateR)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, OneGappedShape>; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3068:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3068 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, onegappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:77: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment >, InfixSegment>; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1876 | _patternInit(pattern, errorRate, minLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder >, InfixSegment>, Swift > > >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2481:13: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2481 | while (find(swiftFinderR, swiftPatternR, maxErrorRateR)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, GappedShape > >; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3070:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3070 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, gappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:76: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::container(Finder&) [with THaystack = Segment >, InfixSegment>; TSpec = Swift > >; typename Parameter_::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1875:77: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment >, InfixSegment>; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1875 | pattern.finderLength = pattern.params.tabooLength + length(container(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder >, InfixSegment>, Swift > > >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2481:13: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2481 | while (find(swiftFinderR, swiftPatternR, maxErrorRateR)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, UngappedShape<0> >; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3099:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3099 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, ungappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:793:42: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 793 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:77: required from ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:692:19: required from ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal, TSufPrefSpec) [with TMatch = ReadMatch; TGenome = String >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, InfixSegment>, Myers >, Alloc<> >; TSpec = RazerSSpec<>; TSufPrefSpec = LongestSuffix; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 692 | TGenomeInfixRev infRev(inf); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2570:21: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2570 | if (!matchVerify(mR, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~ 2571 | infix(genome,minBeginPos,endPosition(infix(swiftFinderR, genomeInf))), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2572 | rseqNo, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~ 2573 | readSet,//readSetR, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~ 2574 | forwardPatternsR, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~ 2575 | options, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~ 2576 | TSwiftSpec(), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~ 2577 | LongestSuffix())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, UngappedShape<0> >; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3099:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3099 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, ungappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(const Segment&) [with THost = String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:537:26: required from ‘void seqan::setHost(ModifiedString&, const THost&) [with THost = Segment >, InfixSegment>; TSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 537 | me._host = _toPointer(host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:696:10: required from ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal, TSufPrefSpec) [with TMatch = ReadMatch; TGenome = String >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, InfixSegment>, Myers >, Alloc<> >; TSpec = RazerSSpec<>; TSufPrefSpec = LongestSuffix; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 696 | setHost(readRev,infix(readSet[rseqNo],length(readSet[rseqNo])-options.minMatchLen,length(readSet[rseqNo]))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2570:21: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2570 | if (!matchVerify(mR, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~ 2571 | infix(genome,minBeginPos,endPosition(infix(swiftFinderR, genomeInf))), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2572 | rseqNo, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~ 2573 | readSet,//readSetR, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~ 2574 | forwardPatternsR, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~ 2575 | options, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~ 2576 | TSwiftSpec(), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~ 2577 | LongestSuffix())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, UngappedShape<0> >; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3099:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3099 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, ungappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:477:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 477 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment >, InfixSegment>; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1876 | _patternInit(pattern, errorRate, minLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder >, InfixSegment>, Swift > > >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2481:13: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2481 | while (find(swiftFinderR, swiftPatternR, maxErrorRateR)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, OneGappedShape>; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3101:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3101 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, onegappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment >, InfixSegment>; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1876 | _patternInit(pattern, errorRate, minLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder >, InfixSegment>, Swift > > >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2481:13: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2481 | while (find(swiftFinderR, swiftPatternR, maxErrorRateR)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, GappedShape > >; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3103:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3103 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, gappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:616:25: required from ‘typename seqan::Iterator >::Type seqan::begin(T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 616 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:375:32: required from ‘seqan::Finder >::Finder(THaystack&, TRepeatSize, TPeriodSize) [with TRepeatSize = int; TPeriodSize = int; THaystack = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 375 | data_iterator(begin(haystack, Rooted())), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:683:16: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 683 | TSwiftFinderR swiftFinderR(genomeInf, options.repeatLength, 1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:1046:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1046 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2180:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2180 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2242:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2242 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:532:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 532 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::container(Finder&) [with THaystack = Segment, Alloc<> >, InfixSegment>; TSpec = Swift > >; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1875:77: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1875 | pattern.finderLength = pattern.params.tabooLength + length(container(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:717:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 717 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:1046:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1046 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2180:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2180 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2242:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2242 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:793:42: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 793 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1876 | _patternInit(pattern, errorRate, minLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:717:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 717 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:1046:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1046 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2180:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2180 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2245:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2245 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1876 | _patternInit(pattern, errorRate, minLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:717:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 717 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:1046:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1046 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2180:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2180 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2248:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2248 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::container(Finder&) [with THaystack = Segment, Alloc<> >, InfixSegment>; TSpec = Swift > >; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1875:77: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1875 | pattern.finderLength = pattern.params.tabooLength + length(container(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:717:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 717 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:1046:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1046 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2180:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2180 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2253:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2253 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:793:42: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 793 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:77: required from ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:1466:19: required from ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal) [with TMatch = ReadMatch; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, Myers > >; TSpec = RazerSSpec<>; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1466 | TGenomeInfixRev infRev(inf); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:775:21: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 775 | if (matchVerify( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^ 776 | (*it).i2, infix(genome, (*it).i2.gBegin, (*it).i2.gEnd), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 777 | rseqNo, readSetL, forwardPatternsL, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 778 | options, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:1046:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1046 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2180:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2180 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2253:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2253 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1876 | _patternInit(pattern, errorRate, minLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:717:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 717 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:1046:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1046 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2180:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2180 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2256:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2256 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1876 | _patternInit(pattern, errorRate, minLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:717:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 717 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:1046:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1046 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2180:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2180 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2259:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2259 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:111:7: required from ‘void seqan::_streamWriteSeq(TTarget&, const TSource&, True) [with TTarget = std::basic_ofstream; TSource = ModifiedString >, InfixSegment>, ModView > > >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 111 | class ModifiedIterator > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/stream_algorithms.h:219:17: required from ‘void seqan::_streamWrite(TTarget&, const TSource&) [with TTarget = std::basic_ofstream; TSource = ModifiedString >, InfixSegment>, ModView > > >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 219 | _streamWriteSeq(target, source, typename IsSequence::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/file_format_raw.h:282:14: required from ‘void seqan::write(TFile&, const TData&, const TString&, Raw) [with TFile = std::basic_ofstream; TData = ModifiedString >, InfixSegment>, ModView > > >, Tag >; TString = char [1]; Raw = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 282 | _streamWrite(file, data); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/file_format_raw.h:343:7: required from ‘void seqan::write(TFile&, const TData&) [with TFile = std::basic_ofstream; TData = ModifiedString >, InfixSegment>, ModView > > >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 343 | write(file, data, "", Raw()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:807:10: required from ‘TStream& seqan::operator<<(TStream&, const ModifiedString&) [with TStream = std::basic_ofstream; THost = ModifiedString >, InfixSegment>, ModView > > >; TSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 807 | write(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/outputFormat.h:1589:14: required from ‘void seqan::dumpMatches(TMatches&, const TGenomeNames&, StringSet > >&, std::map, unsigned int> >&, const TReads&, const TReadRegions&, TCounts&, const TReadNames&, CharString, CharString, RazerSOptions&) [with TMatches = String >; TGenomeNames = StringSet > >; TReads = StringSet >, Owner > >; TReadRegions = String > > >; TReadNames = StringSet > >; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1589 | file << reverseComplementString(reads[currReadNo]) << "\t*\t"; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:305:14: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 305 | dumpMatches(matches, genomeNames, genomeFileNames, gnoToFileMap, readSet, readRegions, stats, readNames, readFileNames[0], errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:147:15: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 147 | : data_container(other_.data_container), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::host(Finder&) [with THaystack = Segment >, InfixSegment>; TSpec = Swift > >; typename Parameter_::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1813:36: required from ‘bool seqan::_firstNonRepeatRange(TFinder&, Pattern >&) [with TFinder = Finder >, InfixSegment>, Swift > > >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1813 | finder.endPos = length(host(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1881:34: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment >, InfixSegment>; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1881 | if (!_firstNonRepeatRange(finder, pattern)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder >, InfixSegment>, Swift > > >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2481:13: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2481 | while (find(swiftFinderR, swiftPatternR, maxErrorRateR)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, UngappedShape<0> >; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3066:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3066 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, ungappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:778:42: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 778 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter > seqan::operator+(const Iter >&, TIntegral) [with TContainer = Segment >, InfixSegment>; TIterator = SimpleType*; TSpec = Tag; TIntegral = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1823:41: required from ‘bool seqan::_firstNonRepeatRange(TFinder&, Pattern >&) [with TFinder = Finder >, InfixSegment>, Swift > > >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1823 | finder.haystackEnd = begin(tmpHost) + (finder.endPos - length(pattern.shape) + 1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1881:34: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment >, InfixSegment>; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1881 | if (!_firstNonRepeatRange(finder, pattern)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder >, InfixSegment>, Swift > > >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2481:13: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2481 | while (find(swiftFinderR, swiftPatternR, maxErrorRateR)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, UngappedShape<0> >; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3066:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3066 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, ungappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:609:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 609 | return Iter >(container(left), hostIterator(left) + right); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::container(const Finder&) [with THaystack = Segment >, InfixSegment>; TSpec = Swift > >; typename Parameter_::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:1171:18: required from ‘typename seqan::Parameter_::Type>::Type seqan::haystack(const TObject&) [with TObject = Finder >, InfixSegment>, Swift > > >; typename Parameter_::Type>::Type = Segment >, InfixSegment>; typename Haystack::Type = const Segment >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1171 | return container(obj); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1628:38: required from ‘seqan::Pair > >::Type> seqan::positionRange(const Finder >&) [with THaystack = Segment >, InfixSegment>; TSpec = Tag >; typename Position > >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1628 | __int64 textEnd = length(haystack(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1639:25: required from ‘seqan::Pair > >::Type> seqan::positionRange(Finder >&) [with THaystack = Segment >, InfixSegment>; TSpec = Tag >; typename Position > >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1639 | return positionRange(const_cast > const &>(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2516:26: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2516 | gPair = positionRange(swiftFinderL); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, UngappedShape<0> >; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3066:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 3066 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, ungappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:801:42: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 801 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::host(Finder&) [with THaystack = Segment >, InfixSegment>; TSpec = Swift > >; typename Parameter_::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1813:36: required from ‘bool seqan::_firstNonRepeatRange(TFinder&, Pattern >&) [with TFinder = Finder >, InfixSegment>, Swift > > >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1813 | finder.endPos = length(host(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1881:34: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment >, InfixSegment>; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1881 | if (!_firstNonRepeatRange(finder, pattern)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder >, InfixSegment>, Swift > > >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2481:13: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2481 | while (find(swiftFinderR, swiftPatternR, maxErrorRateR)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, UngappedShape<0> >; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3099:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3099 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, ungappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:778:42: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 778 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::container(const Finder&) [with THaystack = Segment >, InfixSegment>; TSpec = Swift > >; typename Parameter_::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:1171:18: required from ‘typename seqan::Parameter_::Type>::Type seqan::haystack(const TObject&) [with TObject = Finder >, InfixSegment>, Swift > > >; typename Parameter_::Type>::Type = Segment >, InfixSegment>; typename Haystack::Type = const Segment >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1171 | return container(obj); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1628:38: required from ‘seqan::Pair > >::Type> seqan::positionRange(const Finder >&) [with THaystack = Segment >, InfixSegment>; TSpec = Tag >; typename Position > >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1628 | __int64 textEnd = length(haystack(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1639:25: required from ‘seqan::Pair > >::Type> seqan::positionRange(Finder >&) [with THaystack = Segment >, InfixSegment>; TSpec = Tag >; typename Position > >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1639 | return positionRange(const_cast > const &>(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2516:26: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2516 | gPair = positionRange(swiftFinderL); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, UngappedShape<0> >; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3099:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3099 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, ungappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:801:42: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 801 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::host(Finder&) [with THaystack = Segment, Alloc<> >, InfixSegment>; TSpec = Swift > >; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1813:36: required from ‘bool seqan::_firstNonRepeatRange(TFinder&, Pattern >&) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1813 | finder.endPos = length(host(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1881:34: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1881 | if (!_firstNonRepeatRange(finder, pattern)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:717:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 717 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:1046:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1046 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2180:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2180 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2242:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2242 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:778:42: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 778 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter > seqan::operator+(const Iter >&, TIntegral) [with TContainer = Segment, Alloc<> >, InfixSegment>; TIterator = SimpleType*; TSpec = Tag; TIntegral = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1823:41: required from ‘bool seqan::_firstNonRepeatRange(TFinder&, Pattern >&) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1823 | finder.haystackEnd = begin(tmpHost) + (finder.endPos - length(pattern.shape) + 1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1881:34: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1881 | if (!_firstNonRepeatRange(finder, pattern)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:717:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 717 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:1046:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1046 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2180:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2180 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2242:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2242 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:609:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 609 | return Iter >(container(left), hostIterator(left) + right); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter > seqan::operator+(const Iter >&, TIntegral) [with TContainer = Segment, Alloc<> >, InfixSegment>; TIterator = SimpleType*; TSpec = Tag; TIntegral = unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1792:48: required from ‘bool seqan::_nextNonRepeatRange(TFinder&, Pattern >&) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1792 | hostIterator(finder) = begin(host(finder)) + finder.startPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1912:37: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1912 | if (!_nextNonRepeatRange(finder, pattern)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:717:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 717 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:1046:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1046 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2180:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2180 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2242:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2242 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:609:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 609 | return Iter >(container(left), hostIterator(left) + right); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::host(Finder&) [with THaystack = Segment, Alloc<> >, InfixSegment>; TSpec = Swift > >; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1813:36: required from ‘bool seqan::_firstNonRepeatRange(TFinder&, Pattern >&) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1813 | finder.endPos = length(host(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1881:34: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1881 | if (!_firstNonRepeatRange(finder, pattern)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:717:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 717 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:1046:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1046 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2180:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2180 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2253:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2253 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:778:42: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 778 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:69: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSource = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TValue2 = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; typename Reference > >::Type = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Swift > >; typename Host >::Type = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2410:33: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2410 | TReadSetL &readSetL = host(host(swiftPatternL)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, UngappedShape<0> >; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3066:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3066 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, ungappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >& seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >::operator=(const seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: because ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText_ = seqan::StringSet >, seqan::InfixSegment>, seqan::Owner<> >; TShapeSpec = seqan::Shape, seqan::UngappedShape<0> >; TSpec = seqan::Tag]’ 368 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSource = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TValue2 = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; typename Reference > >::Type = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Swift > >; typename Host >::Type = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2411:33: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 2411 | TReadSetR &readSetR = host(host(swiftPatternR)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, OneGappedShape>; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3068:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 3068 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, onegappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >& seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >::operator=(const seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: because ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText_ = seqan::StringSet >, seqan::InfixSegment>, seqan::Owner<> >; TShapeSpec = seqan::Shape, seqan::OneGappedShape>; TSpec = seqan::Tag]’ 368 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:333:15: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 333 | class Index > { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >& seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >::operator=(const seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSource = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TValue2 = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; typename Reference > >::Type = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSpec = Swift > >; typename Host >::Type = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2411:33: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2411 | TReadSetR &readSetR = host(host(swiftPatternR)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, GappedShape > >; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3070:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3070 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, gappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >& seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >::operator=(const seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: because ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText_ = seqan::StringSet >, seqan::InfixSegment>, seqan::Owner<> >; TShapeSpec = seqan::Shape, seqan::GappedShape > >; TSpec = seqan::Tag]’ 368 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:333:15: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 333 | class Index > { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >& seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >::operator=(const seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::container(Finder&) [with THaystack = Segment >, InfixSegment>; TSpec = void; typename Parameter_::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1724:42: required from ‘bool seqan::find(TFinder&, const Pattern >&, PatternState_ >&) [with TFinder = Finder >, InfixSegment>, void>; TNeedle = Segment >, InfixSegment>; TSpec = FindInfix; THasState = True; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1724 | TSize haystack_length = length(container(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1756:13: required from ‘bool seqan::find(TFinder&, const Pattern >&, PatternState_ >&, int) [with TFinder = Finder >, InfixSegment>, void>; TNeedle = Segment >, InfixSegment>; TSpec = FindInfix; THasState = True; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1756 | return find(finder, pattern, state); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1774:13: required from ‘bool seqan::find(TFinder&, Pattern >&, int) [with TFinder = Finder >, InfixSegment>, void>; TNeedle = Segment >, InfixSegment>; TSpec = FindInfix; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1774 | return find(finder, pattern, pattern, minScore); //static cast /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:670:13: required from ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal, TSufPrefSpec) [with TMatch = ReadMatch; TGenome = String >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, InfixSegment>, Myers >, Alloc<> >; TSpec = RazerSSpec<>; TSufPrefSpec = LongestSuffix; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 670 | while (find(myersFinder, myersPattern, minScore)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2570:21: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2570 | if (!matchVerify(mR, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~ 2571 | infix(genome,minBeginPos,endPosition(infix(swiftFinderR, genomeInf))), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2572 | rseqNo, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~ 2573 | readSet,//readSetR, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~ 2574 | forwardPatternsR, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~ 2575 | options, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~ 2576 | TSwiftSpec(), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~ 2577 | LongestSuffix())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, UngappedShape<0> >; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3099:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3099 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, ungappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:793:42: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 793 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_endDefault(T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:841:23: required from ‘typename seqan::Iterator >::Type seqan::end(T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 841 | return _endDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_reverse.h:463:24: required from ‘typename seqan::Iterator >, const seqan::Tag >::Type seqan::begin(ModifiedString >&, Tag) [with THost = Segment >, InfixSegment>; TTagSpec = Rooted_; typename Iterator >, const Tag >::Type = ModifiedIterator >, InfixSegment>, AdaptorIterator*, Tag > >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 463 | TIterator temp_(end(host(me), Rooted())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:440:24: required from ‘seqan::Finder::Finder(THaystack&) [with THaystack = seqan::ModifiedString >, seqan::InfixSegment>, seqan::Tag >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 440 | : data_iterator(begin(haystack, Rooted())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:693:19: required from ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal, TSufPrefSpec) [with TMatch = ReadMatch; TGenome = String >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, InfixSegment>, Myers >, Alloc<> >; TSpec = RazerSSpec<>; TSufPrefSpec = LongestSuffix; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 693 | TMyersFinderRev myersFinderRev(infRev); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2570:21: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2570 | if (!matchVerify(mR, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~ 2571 | infix(genome,minBeginPos,endPosition(infix(swiftFinderR, genomeInf))), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2572 | rseqNo, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~ 2573 | readSet,//readSetR, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~ 2574 | forwardPatternsR, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~ 2575 | options, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~ 2576 | TSwiftSpec(), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~ 2577 | LongestSuffix())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, UngappedShape<0> >; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3099:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3099 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, ungappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:768:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 768 | return TIterator(me, end(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:101: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h: In instantiation of ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String >, seqan::InfixSegment>, seqan::Alloc<> >; TValue = const seqan::Segment >, seqan::InfixSegment>; TExpand = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Segment >, InfixSegment>; TTargetSpec = Alloc<>; TValue = Segment >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_owner.h:146:16: required from ‘void seqan::appendValue(StringSet >&, const TString2&, Tag) [with TString = Segment >, InfixSegment>; TString2 = Segment >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 146 | appendValue(me.strings, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = StringSet >, InfixSegment>, Owner<> >; TValue = Segment >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:1735:14: required from ‘bool seqan::combineLeftRight(TMatch&, TMatch&, TRead&, TGenome&, RazerSOptions&, char, SwiftSemiGlobal) [with TMatch = ReadMatch; TRead = const Segment >, InfixSegment>; TGenome = String >; TSpec = RazerSSpec<>; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1735 | appendValue(strL,genomeInfL); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2728:25: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2728 | !combineLeftRight(mRtmp,mLtmp,read,genome,options,orientation,TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, UngappedShape<0> >; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3099:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 3099 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, ungappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1475:37: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1475 | typename Value::Type temp_copy(_value); //temp copy because resize could invalidate _value | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSource = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TValue2 = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; typename Reference > >::Type = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Swift > >; typename Host >::Type = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:664:32: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 664 | TReadSet &readSetL = host(host(swiftPatternL)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:1046:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1046 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2180:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2180 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2242:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2242 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: because ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText_ = seqan::StringSet >, seqan::Owner > >; TShapeSpec = seqan::Shape, seqan::UngappedShape<0> >; TSpec = seqan::Tag]’ 368 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSource = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TValue2 = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; typename Reference > >::Type = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Swift > >; typename Host >::Type = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:664:32: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 664 | TReadSet &readSetL = host(host(swiftPatternL)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:1046:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 1046 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2180:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 2180 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2245:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 2245 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: because ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText_ = seqan::StringSet >, seqan::Owner > >; TShapeSpec = seqan::Shape, seqan::OneGappedShape>; TSpec = seqan::Tag]’ 368 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:333:15: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 333 | class Index > { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSource = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TValue2 = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; typename Reference > >::Type = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSpec = Swift > >; typename Host >::Type = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:664:32: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 664 | TReadSet &readSetL = host(host(swiftPatternL)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:1046:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1046 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2180:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2180 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2248:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2248 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: because ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText_ = seqan::StringSet >, seqan::Owner > >; TShapeSpec = seqan::Shape, seqan::GappedShape > >; TSpec = seqan::Tag]’ 368 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:333:15: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 333 | class Index > { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::container(Finder&) [with THaystack = Segment, Alloc<> >, InfixSegment>; TSpec = void; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1724:42: required from ‘bool seqan::find(TFinder&, const Pattern >&, PatternState_ >&) [with TFinder = Finder, Alloc<> >, InfixSegment>, void>; TNeedle = String >; TSpec = FindInfix; THasState = True; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1724 | TSize haystack_length = length(container(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1756:13: required from ‘bool seqan::find(TFinder&, const Pattern >&, PatternState_ >&, int) [with TFinder = Finder, Alloc<> >, InfixSegment>, void>; TNeedle = String >; TSpec = FindInfix; THasState = True; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1756 | return find(finder, pattern, state); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1774:13: required from ‘bool seqan::find(TFinder&, Pattern >&, int) [with TFinder = Finder, Alloc<> >, InfixSegment>, void>; TNeedle = String >; TSpec = FindInfix; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1774 | return find(finder, pattern, pattern, minScore); //static cast /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:1450:13: required from ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal) [with TMatch = ReadMatch; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, Myers > >; TSpec = RazerSSpec<>; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1450 | while (find(myersFinder, myersPattern, minScore)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:775:21: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 775 | if (matchVerify( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^ 776 | (*it).i2, infix(genome, (*it).i2.gBegin, (*it).i2.gEnd), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 777 | rseqNo, readSetL, forwardPatternsL, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 778 | options, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:1046:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1046 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2180:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2180 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2253:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2253 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:793:42: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 793 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_endDefault(T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:841:23: required from ‘typename seqan::Iterator >::Type seqan::end(T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 841 | return _endDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_reverse.h:463:24: required from ‘typename seqan::Iterator >, const seqan::Tag >::Type seqan::begin(ModifiedString >&, Tag) [with THost = Segment, Alloc<> >, InfixSegment>; TTagSpec = Rooted_; typename Iterator >, const Tag >::Type = ModifiedIterator, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 463 | TIterator temp_(end(host(me), Rooted())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:440:24: required from ‘seqan::Finder::Finder(THaystack&) [with THaystack = seqan::ModifiedString, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Tag >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 440 | : data_iterator(begin(haystack, Rooted())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:1468:19: required from ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal) [with TMatch = ReadMatch; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, Myers > >; TSpec = RazerSSpec<>; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1468 | TMyersFinderRev myersFinderRev(infRev); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:775:21: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 775 | if (matchVerify( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^ 776 | (*it).i2, infix(genome, (*it).i2.gBegin, (*it).i2.gEnd), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 777 | rseqNo, readSetL, forwardPatternsL, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 778 | options, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:1046:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1046 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2180:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2180 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2253:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2253 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:768:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 768 | return TIterator(me, end(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1128:31: required from ‘static void seqan::AssignString_::assign_(TTarget&, TSource&) [with TTarget = seqan::String, seqan::Alloc<> >; TSource = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1128 | arrayConstructCopy(begin(source, Standard()), begin(source, Standard()) + part_length, begin(target, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1176:42: required from ‘void seqan::assign(String&, const TSource&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1176 | AssignString_ >::assign_(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1108:11: required from ‘void seqan::assign(String&, const TSource&) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1108 | assign(target, source, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:173:15: required from ‘seqan::String >& seqan::String >::operator=(const TSource&) [with TSource = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TValue = seqan::SimpleType; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 173 | assign(*this, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/outputFormat.h:1102:13: required from ‘void seqan::dumpMatches(TMatches&, const TGenomeNames&, StringSet > >&, std::map, unsigned int> >&, const TReads&, const TReadRegions&, TCounts&, const TReadNames&, CharString, CharString, RazerSOptions&) [with TMatches = String >; TGenomeNames = StringSet > >; TReads = StringSet >, Owner > >; TReadRegions = String > > >; TReadNames = StringSet > >; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1102 | gInf = infix(genomes[(*it).gseqNo], (*it).gBegin, (*it).gEnd); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:305:14: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 305 | dumpMatches(matches, genomeNames, genomeFileNames, gnoToFileMap, readSet, readRegions, stats, readNames, readFileNames[0], errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1444:21: required from ‘void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1444 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1465:31: required from ‘void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1465 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:849:31: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 849 | arrayConstructMove(old_array, old_array + start, seq_array); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: required from ‘typename seqan::Size >::Type seqan::_clearSpace(String&, TSize, TPosition, TPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long unsigned int; TPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1014 | return ClearSpaceStringBase_ >::_clearSpace_(me, size, pos_begin, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1367:67: required from ‘static void seqan::AppendString_::append_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const seqan::String >; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1367 | typename Size::Type part_length = _clearSpace(target, length(source), target_length, target_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42: required from ‘void seqan::append(String&, const TSource&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1421 | AppendString_ >::append_(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_concat_direct.h:318:11: required from ‘void seqan::appendValue(StringSet > >&, const TString2&, Tag) [with TString = String >; TString2 = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 318 | append(me.concat, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:508:14: required from ‘bool seqan::loadReads(TReadSet&, TNameSet&, const char*, const char*, TRazerSOptions&) [with TReadSet = StringSet >, Owner > >; TNameSet = StringSet > >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 508 | appendValue(reads, seq[0], Generous()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:204:17: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 204 | if (!loadReads(readSet, readNames, toCString(readFileNames[0]), toCString(readFileNames[1]), options)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1589:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1589 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:600:17: required from ‘typename seqan::Iterator::Type>::Type seqan::begin(const T&) [with T = Segment >, InfixSegment>; typename Iterator::Type>::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 600 | return begin(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1792:33: required from ‘bool seqan::_nextNonRepeatRange(TFinder&, Pattern >&) [with TFinder = Finder >, InfixSegment>, Swift > > >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1792 | hostIterator(finder) = begin(host(finder)) + finder.startPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1912:37: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment >, InfixSegment>; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1912 | if (!_nextNonRepeatRange(finder, pattern)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder >, InfixSegment>, Swift > > >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2481:13: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2481 | while (find(swiftFinderR, swiftPatternR, maxErrorRateR)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, UngappedShape<0> >; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3066:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 3066 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, ungappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 541 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:61: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_iterator.h: In instantiation of ‘typename seqan::Container >::Type seqan::container(ModifiedIterator&) [with THost = Iter >, InfixSegment>, AdaptorIterator*, Tag > >; TSpec = Tag; typename Container >::Type = ModifiedString >, InfixSegment>, Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:793:18: required from ‘typename seqan::Parameter_::Type seqan::container(Finder&) [with THaystack = ModifiedString >, InfixSegment>, Tag >; TSpec = void; typename Parameter_::Type = ModifiedString >, InfixSegment>, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 793 | return container(hostIterator(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1724:42: required from ‘bool seqan::find(TFinder&, const Pattern >&, PatternState_ >&) [with TFinder = Finder >, InfixSegment>, Tag >, void>; TNeedle = ModifiedString >, InfixSegment>, Tag >; TSpec = FindPrefix; THasState = True; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1724 | TSize haystack_length = length(container(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1756:13: required from ‘bool seqan::find(TFinder&, const Pattern >&, PatternState_ >&, int) [with TFinder = Finder >, InfixSegment>, Tag >, void>; TNeedle = ModifiedString >, InfixSegment>, Tag >; TSpec = FindPrefix; THasState = True; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1756 | return find(finder, pattern, state); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1774:13: required from ‘bool seqan::find(TFinder&, Pattern >&, int) [with TFinder = Finder >, InfixSegment>, Tag >, void>; TNeedle = ModifiedString >, InfixSegment>, Tag >; TSpec = FindPrefix; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1774 | return find(finder, pattern, pattern, minScore); //static cast /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:704:13: required from ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal, TSufPrefSpec) [with TMatch = ReadMatch; TGenome = String >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, InfixSegment>, Myers >, Alloc<> >; TSpec = RazerSSpec<>; TSufPrefSpec = LongestSuffix; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 704 | while (find(myersFinderRev, myersPatternRev, maxScore)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2570:21: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2570 | if (!matchVerify(mR, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~ 2571 | infix(genome,minBeginPos,endPosition(infix(swiftFinderR, genomeInf))), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2572 | rseqNo, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~ 2573 | readSet,//readSetR, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~ 2574 | forwardPatternsR, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~ 2575 | options, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~ 2576 | TSwiftSpec(), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~ 2577 | LongestSuffix())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, UngappedShape<0> >; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3099:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 3099 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, ungappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_iterator.h:294:16: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 294 | TContainer cont(container(host(me))); | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:600:17: required from ‘typename seqan::Iterator::Type>::Type seqan::begin(const T&) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator::Type>::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 600 | return begin(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1792:33: required from ‘bool seqan::_nextNonRepeatRange(TFinder&, Pattern >&) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1792 | hostIterator(finder) = begin(host(finder)) + finder.startPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1912:37: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1912 | if (!_nextNonRepeatRange(finder, pattern)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, InfixSegment>, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:717:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 717 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:1046:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1046 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2180:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 2180 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2242:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 2242 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 541 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_iterator.h: In instantiation of ‘typename seqan::Container >::Type seqan::container(ModifiedIterator&) [with THost = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; TSpec = Tag; typename Container >::Type = ModifiedString, Alloc<> >, InfixSegment>, Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:793:18: required from ‘typename seqan::Parameter_::Type seqan::container(Finder&) [with THaystack = ModifiedString, Alloc<> >, InfixSegment>, Tag >; TSpec = void; typename Parameter_::Type = ModifiedString, Alloc<> >, InfixSegment>, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 793 | return container(hostIterator(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1724:42: required from ‘bool seqan::find(TFinder&, const Pattern >&, PatternState_ >&) [with TFinder = Finder, Alloc<> >, InfixSegment>, Tag >, void>; TNeedle = ModifiedString >, InfixSegment>, Tag >; TSpec = FindPrefix; THasState = True; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1724 | TSize haystack_length = length(container(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1756:13: required from ‘bool seqan::find(TFinder&, const Pattern >&, PatternState_ >&, int) [with TFinder = Finder, Alloc<> >, InfixSegment>, Tag >, void>; TNeedle = ModifiedString >, InfixSegment>, Tag >; TSpec = FindPrefix; THasState = True; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1756 | return find(finder, pattern, state); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1774:13: required from ‘bool seqan::find(TFinder&, Pattern >&, int) [with TFinder = Finder, Alloc<> >, InfixSegment>, Tag >, void>; TNeedle = ModifiedString >, InfixSegment>, Tag >; TSpec = FindPrefix; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1774 | return find(finder, pattern, pattern, minScore); //static cast /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:1473:13: required from ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal) [with TMatch = ReadMatch; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, Myers > >; TSpec = RazerSSpec<>; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1473 | while (find(myersFinderRev, myersPatternRev, maxScore)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:775:21: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 775 | if (matchVerify( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^ 776 | (*it).i2, infix(genome, (*it).i2.gBegin, (*it).i2.gEnd), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 777 | rseqNo, readSetL, forwardPatternsL, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 778 | options, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:1046:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1046 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2180:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2180 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2253:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2253 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_iterator.h:294:16: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 294 | TContainer cont(container(host(me))); | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_endDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:850:23: required from ‘typename seqan::Iterator >::Type seqan::end(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 850 | return _endDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:670:20: required from ‘typename seqan::Iterator, const seqan::Tag >::Type seqan::end(ModifiedString&, Tag) [with THost = const Segment >, InfixSegment>; TSpec = ModView > >; TTagSpec = Rooted_; typename Iterator, const Tag >::Type = ModifiedIterator >, InfixSegment>, AdaptorIterator*, Tag > >, ModView > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 670 | TResult tmp(end(host(me), tag_)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_reverse.h:452:102: required from ‘typename seqan::Iterator >, const seqan::Tag >::Type seqan::begin(const ModifiedString >&, Tag) [with THost = ModifiedString >, InfixSegment>, ModView > > >; TTagSpec = Standard_; typename Iterator >, const Tag >::Type = ModifiedIterator >, InfixSegment>, AdaptorIterator*, Tag > >, ModView > > >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 452 | typename Iterator< ModifiedString const, Tag const >::Type temp_(end(host(me), Rooted())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/stream_algorithms.h:185:61: required from ‘void seqan::_streamWriteSeq(TTarget&, const TSource&, True) [with TTarget = std::basic_ofstream; TSource = ModifiedString >, InfixSegment>, ModView > > >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 185 | typename Iterator::Type it = begin(source, Standard()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/stream_algorithms.h:219:17: required from ‘void seqan::_streamWrite(TTarget&, const TSource&) [with TTarget = std::basic_ofstream; TSource = ModifiedString >, InfixSegment>, ModView > > >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 219 | _streamWriteSeq(target, source, typename IsSequence::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/file_format_raw.h:282:14: required from ‘void seqan::write(TFile&, const TData&, const TString&, Raw) [with TFile = std::basic_ofstream; TData = ModifiedString >, InfixSegment>, ModView > > >, Tag >; TString = char [1]; Raw = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 282 | _streamWrite(file, data); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/file_format_raw.h:343:7: required from ‘void seqan::write(TFile&, const TData&) [with TFile = std::basic_ofstream; TData = ModifiedString >, InfixSegment>, ModView > > >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 343 | write(file, data, "", Raw()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:807:10: required from ‘TStream& seqan::operator<<(TStream&, const ModifiedString&) [with TStream = std::basic_ofstream; THost = ModifiedString >, InfixSegment>, ModView > > >; TSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 807 | write(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/outputFormat.h:1589:14: required from ‘void seqan::dumpMatches(TMatches&, const TGenomeNames&, StringSet > >&, std::map, unsigned int> >&, const TReads&, const TReadRegions&, TCounts&, const TReadNames&, CharString, CharString, RazerSOptions&) [with TMatches = String >; TGenomeNames = StringSet > >; TReads = StringSet >, Owner > >; TReadRegions = String > > >; TReadNames = StringSet > >; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1589 | file << reverseComplementString(reads[currReadNo]) << "\t*\t"; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:305:14: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 305 | dumpMatches(matches, genomeNames, genomeFileNames, gnoToFileMap, readSet, readRegions, stats, readNames, readFileNames[0], errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:777:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 777 | return TIterator(me, end(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:626:22: required from ‘typename seqan::Iterator, const seqan::Tag >::Type seqan::begin(ModifiedString&, Tag) [with THost = const Segment >, InfixSegment>; TSpec = ModView > >; TTagSpec = Rooted_; typename Iterator, const Tag >::Type = ModifiedIterator >, InfixSegment>, AdaptorIterator*, Tag > >, ModView > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 626 | TResult tmp(begin(host(me), tag_)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_reverse.h:497:103: required from ‘typename seqan::Iterator >, const seqan::Tag >::Type seqan::end(const ModifiedString >&, Tag) [with THost = ModifiedString >, InfixSegment>, ModView > > >; TTagSpec = Standard_; typename Iterator >, const Tag >::Type = ModifiedIterator >, InfixSegment>, AdaptorIterator*, Tag > >, ModView > > >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 497 | typename Iterator const, Tag const >::Type temp_(begin(host(me), Rooted())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/stream_algorithms.h:186:63: required from ‘void seqan::_streamWriteSeq(TTarget&, const TSource&, True) [with TTarget = std::basic_ofstream; TSource = ModifiedString >, InfixSegment>, ModView > > >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 186 | typename Iterator::Type it_end = end(source, Standard()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/stream_algorithms.h:219:17: required from ‘void seqan::_streamWrite(TTarget&, const TSource&) [with TTarget = std::basic_ofstream; TSource = ModifiedString >, InfixSegment>, ModView > > >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 219 | _streamWriteSeq(target, source, typename IsSequence::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/file_format_raw.h:282:14: required from ‘void seqan::write(TFile&, const TData&, const TString&, Raw) [with TFile = std::basic_ofstream; TData = ModifiedString >, InfixSegment>, ModView > > >, Tag >; TString = char [1]; Raw = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 282 | _streamWrite(file, data); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/file_format_raw.h:343:7: required from ‘void seqan::write(TFile&, const TData&) [with TFile = std::basic_ofstream; TData = ModifiedString >, InfixSegment>, ModView > > >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 343 | write(file, data, "", Raw()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:807:10: required from ‘TStream& seqan::operator<<(TStream&, const ModifiedString&) [with TStream = std::basic_ofstream; THost = ModifiedString >, InfixSegment>, ModView > > >; TSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 807 | write(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/outputFormat.h:1589:14: required from ‘void seqan::dumpMatches(TMatches&, const TGenomeNames&, StringSet > >&, std::map, unsigned int> >&, const TReads&, const TReadRegions&, TCounts&, const TReadNames&, CharString, CharString, RazerSOptions&) [with TMatches = String >; TGenomeNames = StringSet > >; TReads = StringSet >, Owner > >; TReadRegions = String > > >; TReadNames = StringSet > >; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1589 | file << reverseComplementString(reads[currReadNo]) << "\t*\t"; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:305:14: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 305 | dumpMatches(matches, genomeNames, genomeFileNames, gnoToFileMap, readSet, readRegions, stats, readNames, readFileNames[0], errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 541 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveBackwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1641:30: required from ‘void seqan::arrayMoveBackward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1641 | _arrayMoveBackwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1213:26: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = SimpleType*; TSource1 = SimpleType*; TSource2 = SimpleType*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1213 | arrayMoveBackward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1660:14: required from ‘void seqan::_arrayClearSpacePointer(TValue*, size_t, size_t, size_t, const True&) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1660 | arrayMove(array_begin + keep_from, array_begin + array_length, array_begin + move_to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1681:28: required from ‘void seqan::arrayClearSpace(TValue*, size_t, size_t, size_t) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1681 | _arrayClearSpacePointer(array_begin, array_length, keep_from, move_to, typename IsSimple::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:856:28: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1367:67: required from ‘static void seqan::AppendString_::append_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const seqan::String >; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1367 | typename Size::Type part_length = _clearSpace(target, length(source), target_length, target_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42: required from ‘void seqan::append(String&, const TSource&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1421 | AppendString_ >::append_(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_concat_direct.h:318:11: required from ‘void seqan::appendValue(StringSet > >&, const TString2&, Tag) [with TString = String >; TString2 = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 318 | append(me.concat, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:508:14: required from ‘bool seqan::loadReads(TReadSet&, TNameSet&, const char*, const char*, TRazerSOptions&) [with TReadSet = StringSet >, Owner > >; TNameSet = StringSet > >; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 508 | appendValue(reads, seq[0], Generous()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:204:17: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 204 | if (!loadReads(readSet, readNames, toCString(readFileNames[0]), toCString(readFileNames[1]), options)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1621:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1621 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Segment >, seqan::InfixSegment>*; TParam = seqan::Segment >, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Segment >, InfixSegment>*; TParam = Segment >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1481:31: required from ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String >, seqan::InfixSegment>, seqan::Alloc<> >; TValue = const seqan::Segment >, seqan::InfixSegment>; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1481 | valueConstruct(begin(me, Standard()) + me_length, temp_copy); //??? this should be valueMoveConstruct /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Segment >, InfixSegment>; TTargetSpec = Alloc<>; TValue = Segment >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_owner.h:146:16: required from ‘void seqan::appendValue(StringSet >&, const TString2&, Tag) [with TString = Segment >, InfixSegment>; TString2 = Segment >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 146 | appendValue(me.strings, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2728:25: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2728 | !combineLeftRight(mRtmp,mLtmp,read,genome,options,orientation,TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, UngappedShape<0> >; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3099:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 3099 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, ungappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1925:45: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2153:18: required from ‘typename seqan::Size::Type seqan::resize(T&, TSize, const TValue&) [with T = String >; TSize = int; TValue = SimpleType; typename Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2153 | return resize(me, new_length, val, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:484:9: required from ‘void seqan::initPatterns(TStateString&, const TShape&, int, const TLogErrorDistr&, TDistance, bool) [with TStateString = String, float>, Alloc<> >; TShape = String >; TLogErrorDistr = String; TDistance = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 484 | resize(pattern, span, (ErrorAlphabet)SEQAN_MATCH); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:1118:14: required from ‘void seqan::qgramFilteringSensitivity(TSensitivityMatrix&, const TShape&, TPatternSize, TErrors, TThresh, TDistance, ThreshExact, const TErrorDist&) [with TSensitivityMatrix = String; TShape = Shape, GappedShape > >; TPatternSize = unsigned int; TErrors = unsigned int; TThresh = unsigned int; TDistance = Tag; TErrorDist = String; ThreshExact = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1118 | initPatterns(states, bitString, errors, logErrorDistribution, dist, true); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/paramChooser.h:778:30: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 778 | qgramFilteringSensitivity(sensMat, shape, totalN, maxErrors - 1, maxT - 1, HammingDistance(), ThreshExact(), logErrorDistribution); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/paramChooser.h:1228:24: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1228 | makeSelectedStatsFile(errorDistribution,pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:702:22: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 702 | if (!chooseParams(options,pm_options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = Segment >, InfixSegment>; TSpec = Owner<>; TShape = Shape, UngappedShape<0> >; TDir = String >; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1593:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1593 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, InfixSegment>, Owner<> >; TShapeSpec = Shape, UngappedShape<0> >; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, InfixSegment>, Owner<> >; TSpec = IndexQGram, UngappedShape<0> >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, InfixSegment>, Owner<> >; TSpec = IndexQGram, UngappedShape<0> >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2481:13: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2481 | while (find(swiftFinderR, swiftPatternR, maxErrorRateR)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, UngappedShape<0> >; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3066:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 3066 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, ungappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:55, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:71: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = Segment >, InfixSegment>; TSpec = Owner<>; TShape = Shape, UngappedShape<0> >; TDir = String >; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1604:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1604 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, InfixSegment>, Owner<> >; TShapeSpec = Shape, UngappedShape<0> >; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, InfixSegment>, Owner<> >; TSpec = IndexQGram, UngappedShape<0> >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, InfixSegment>, Owner<> >; TSpec = IndexQGram, UngappedShape<0> >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2481:13: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2481 | while (find(swiftFinderR, swiftPatternR, maxErrorRateR)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, UngappedShape<0> >; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3066:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 3066 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, ungappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = Segment >, InfixSegment>; TSpec = Owner<>; TShape = Shape, OneGappedShape>; TDir = String >; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1593:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1593 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, InfixSegment>, Owner<> >; TShapeSpec = Shape, OneGappedShape>; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, InfixSegment>, Owner<> >; TSpec = IndexQGram, OneGappedShape>, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, InfixSegment>, Owner<> >; TSpec = IndexQGram, OneGappedShape>, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2481:13: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2481 | while (find(swiftFinderR, swiftPatternR, maxErrorRateR)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, OneGappedShape>; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3068:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 3068 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, onegappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = Segment >, InfixSegment>; TSpec = Owner<>; TShape = Shape, OneGappedShape>; TDir = String >; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1604:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1604 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, InfixSegment>, Owner<> >; TShapeSpec = Shape, OneGappedShape>; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, InfixSegment>, Owner<> >; TSpec = IndexQGram, OneGappedShape>, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, InfixSegment>, Owner<> >; TSpec = IndexQGram, OneGappedShape>, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2481:13: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2481 | while (find(swiftFinderR, swiftPatternR, maxErrorRateR)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, OneGappedShape>; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3068:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 3068 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, onegappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = Segment >, InfixSegment>; TSpec = Owner<>; TShape = Shape, GappedShape > >; TDir = String >; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1593:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1593 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, InfixSegment>, Owner<> >; TShapeSpec = Shape, GappedShape > >; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, InfixSegment>, Owner<> >; TSpec = IndexQGram, GappedShape > >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, InfixSegment>, Owner<> >; TSpec = IndexQGram, GappedShape > >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2481:13: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2481 | while (find(swiftFinderR, swiftPatternR, maxErrorRateR)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, GappedShape > >; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3070:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 3070 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, gappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = Segment >, InfixSegment>; TSpec = Owner<>; TShape = Shape, GappedShape > >; TDir = String >; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1604:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1604 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, InfixSegment>, Owner<> >; TShapeSpec = Shape, GappedShape > >; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, InfixSegment>, Owner<> >; TSpec = IndexQGram, GappedShape > >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, InfixSegment>, Owner<> >; TSpec = IndexQGram, GappedShape > >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2481:13: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2481 | while (find(swiftFinderR, swiftPatternR, maxErrorRateR)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, GappedShape > >; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3070:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 3070 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, gappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, UngappedShape<0> >; TDir = String >; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1593:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1593 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, UngappedShape<0> >; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, UngappedShape<0> >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, UngappedShape<0> >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:717:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 717 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:1046:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1046 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2180:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2180 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2242:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2242 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, UngappedShape<0> >; TDir = String >; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1604:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1604 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, UngappedShape<0> >; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, UngappedShape<0> >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, UngappedShape<0> >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:717:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 717 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:1046:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1046 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2180:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2180 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2242:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2242 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, OneGappedShape>; TDir = String >; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1593:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1593 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, OneGappedShape>; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, OneGappedShape>, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, OneGappedShape>, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:717:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 717 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:1046:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1046 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2180:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2180 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2245:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2245 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, OneGappedShape>; TDir = String >; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1604:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1604 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, OneGappedShape>; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, OneGappedShape>, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, OneGappedShape>, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:717:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 717 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:1046:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1046 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2180:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2180 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2245:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2245 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, GappedShape > >; TDir = String >; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1593:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1593 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, GappedShape > >; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, GappedShape > >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, GappedShape > >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:717:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 717 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:1046:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1046 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2180:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2180 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2248:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2248 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, GappedShape > >; TDir = String >; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1604:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1604 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, GappedShape > >; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, GappedShape > >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, GappedShape > >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:717:13: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 717 | while (find(swiftFinderR, swiftPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:1046:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1046 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2180:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2180 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2248:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2248 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1444:21: required from ‘void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1444 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1465:31: required from ‘void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1465 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:849:31: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 849 | arrayConstructMove(old_array, old_array + start, seq_array); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: required from ‘typename seqan::Size >::Type seqan::_clearSpace(String&, TSize, TPosition, TPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long unsigned int; TPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1014 | return ClearSpaceStringBase_ >::_clearSpace_(me, size, pos_begin, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1048:30: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1845:16: required from ‘void seqan::insertValue(T&, TPosition, const TValue&) [with T = String >; TPosition = int; TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1845 | insertValue(me, pos, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:511:16: required from ‘void seqan::initPatterns(TStateString&, const TShape&, int, const TLogErrorDistr&, TDistance, bool) [with TStateString = String, float>, Alloc<> >; TShape = String >; TLogErrorDistr = String; TDistance = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 511 | insertValue(pattern, mods[i].i1, (ErrorAlphabet)SEQAN_INSERT); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:1118:14: required from ‘void seqan::qgramFilteringSensitivity(TSensitivityMatrix&, const TShape&, TPatternSize, TErrors, TThresh, TDistance, ThreshExact, const TErrorDist&) [with TSensitivityMatrix = String; TShape = Shape, GappedShape > >; TPatternSize = unsigned int; TErrors = unsigned int; TThresh = unsigned int; TDistance = Tag; TErrorDist = String; ThreshExact = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1118 | initPatterns(states, bitString, errors, logErrorDistribution, dist, true); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/paramChooser.h:778:30: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 778 | qgramFilteringSensitivity(sensMat, shape, totalN, maxErrors - 1, maxT - 1, HammingDistance(), ThreshExact(), logErrorDistribution); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/paramChooser.h:1228:24: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1228 | makeSelectedStatsFile(errorDistribution,pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:702:22: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 702 | if (!chooseParams(options,pm_options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1589:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1589 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:606:19: required from ‘typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, InfixSegment>, Tag >; TValue = Segment, Alloc<> >, InfixSegment>; typename Value::Type = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 606 | valueConstruct(ret, data); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:735:42: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Segment, Alloc<> >, InfixSegment>; TValue2 = const Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 735 | me.data_value = _holderAllocateObject(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:1018:15: required from ‘void seqan::assignValue(Holder >&, const TSource&) [with TValue = Segment, Alloc<> >, InfixSegment>; TSource = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1018 | create(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:153:20: required from ‘seqan::Holder >::Holder(const THostValue&) [with TValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; THostValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 153 | assignValue(*this, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_wotd.h:267:4: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:683:16: required from ‘void seqan::mapMatePairReads(TMatches&, TGenome&, unsigned int, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, Myers > >; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 683 | TSwiftFinderR swiftFinderR(genomeInf, options.repeatLength, 1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_matepairs.h:1046:21: required from ‘int seqan::mapMatePairReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, const TReadSet_&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1046 | mapMatePairReads(matches, genome, gseqNo, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2180:26: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2180 | return mapMatePairReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2242:19: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2242 | return mapReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveBackwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1641:30: required from ‘void seqan::arrayMoveBackward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1641 | _arrayMoveBackwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1213:26: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = SimpleType*; TSource1 = SimpleType*; TSource2 = SimpleType*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1213 | arrayMoveBackward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1660:14: required from ‘void seqan::_arrayClearSpacePointer(TValue*, size_t, size_t, size_t, const True&) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1660 | arrayMove(array_begin + keep_from, array_begin + array_length, array_begin + move_to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1681:28: required from ‘void seqan::arrayClearSpace(TValue*, size_t, size_t, size_t) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1681 | _arrayClearSpacePointer(array_begin, array_length, keep_from, move_to, typename IsSimple::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:856:28: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 856 | arrayClearSpace(seq_array + start, old_length - start, removed_size, size); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1845:16: required from ‘void seqan::insertValue(T&, TPosition, const TValue&) [with T = String >; TPosition = int; TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1845 | insertValue(me, pos, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:511:16: required from ‘void seqan::initPatterns(TStateString&, const TShape&, int, const TLogErrorDistr&, TDistance, bool) [with TStateString = String, float>, Alloc<> >; TShape = String >; TLogErrorDistr = String; TDistance = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 511 | insertValue(pattern, mods[i].i1, (ErrorAlphabet)SEQAN_INSERT); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:1118:14: required from ‘void seqan::qgramFilteringSensitivity(TSensitivityMatrix&, const TShape&, TPatternSize, TErrors, TThresh, TDistance, ThreshExact, const TErrorDist&) [with TSensitivityMatrix = String; TShape = Shape, GappedShape > >; TPatternSize = unsigned int; TErrors = unsigned int; TThresh = unsigned int; TDistance = Tag; TErrorDist = String; ThreshExact = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1118 | initPatterns(states, bitString, errors, logErrorDistribution, dist, true); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/paramChooser.h:778:30: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 778 | qgramFilteringSensitivity(sensMat, shape, totalN, maxErrors - 1, maxT - 1, HammingDistance(), ThreshExact(), logErrorDistribution); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/paramChooser.h:1228:24: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1228 | makeSelectedStatsFile(errorDistribution,pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:702:22: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 702 | if (!chooseParams(options,pm_options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1621:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1621 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2728:25: required from ‘void seqan::mapSplicedReads(TMatches&, TGenome&, unsigned int, TOriReadSet&, TReadRegions&, Pattern >&, Pattern >&, TVerifier&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String >; TOriReadSet = StringSet >, Owner > >; TReadIndexL = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TReadIndexR = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2728 | !combineLeftRight(mRtmp,mLtmp,read,genome,options,orientation,TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:2263:20: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet_&, TReadRegions&, TCounts&, RazerSOptions&, const TShapeL&, const TShapeR&, Swift) [with TMatches = String >; TReadSet_ = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TShapeL = Shape, UngappedShape<0> >; TShapeR = Shape, UngappedShape<0> >; TSwiftSpec = Tag >; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2263 | mapSplicedReads(matches, genome, gseqNo, readSet, readRegions, swiftPatternL, swiftPatternR, forwardPatternsL, forwardPatternsR, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers_spliced.h:3099:27: required from ‘int seqan::mapSplicedReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 3099 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options, ungappedL, ungappedR, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/razers.h:2227:31: required from ‘int seqan::mapReads(TMatches&, StringSet > >&, StringSet > >&, std::map, unsigned int> >&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TReadSet = StringSet >, Owner > >; TCounts = String >; TSpec = RazerSSpec<>; TReadRegions = String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2227 | return mapSplicedReads(matches, genomeFileNameList, genomeNames, gnoToFileMap, readSet, readRegions, cnts, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:274:22: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 274 | int error = mapReads(matches, genomeFileNames, genomeNames, gnoToFileMap, readSet, readRegions, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers/splazers.cpp:736:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 736 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 29%] Linking CXX executable ../../../bin/splazers cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/splazers && /usr/bin/cmake -E cmake_link_script CMakeFiles/splazers.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/splazers.dir/splazers.cpp.o -o ../../../bin/splazers -lrt make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 29%] Built target splazers make -f core/apps/stellar/CMakeFiles/stellar.dir/build.make core/apps/stellar/CMakeFiles/stellar.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/stellar /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/stellar/CMakeFiles/stellar.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f core/apps/stellar/CMakeFiles/stellar.dir/build.make core/apps/stellar/CMakeFiles/stellar.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 30%] Building CXX object core/apps/stellar/CMakeFiles/stellar.dir/stellar.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/stellar && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT core/apps/stellar/CMakeFiles/stellar.dir/stellar.cpp.o -MF CMakeFiles/stellar.dir/stellar.cpp.o.d -o CMakeFiles/stellar.dir/stellar.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:40, from /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:24: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:51, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:39: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:45:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:54:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:63:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 63 | struct filterI3 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:401:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 401 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:507:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 507 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:78: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:42:48: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public ::std::binary_function < PageBucket, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:57:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:257:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 257 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:372:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 372 | struct insertBucket : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:44: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_set.h:373:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:404:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 404 | public::std::binary_function // functor for operator> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:744:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 744 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:760:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 760 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:80: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:854:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 854 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:902:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 902 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:970:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 970 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1039:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1039 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1073:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1073 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1121:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1121 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2093:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2093 | struct _qgramComp : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2112:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2112 | public ::std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:46:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 46 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:85:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 85 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:96: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:98:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 98 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:112:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 112 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:127:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:144:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:154:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:99: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:110:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 110 | public ::std::binary_function < SkewDCStream, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:143:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 143 | public ::std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:100: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:99:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 99 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:118:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:132:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 132 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:154:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:175:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 175 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:185:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 185 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:103: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:57:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:97:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 97 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:141:29: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:109: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:59:42: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:164:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, KasaiOriginal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:312:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 312 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:313:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 313 | LCP[isa - 1] = h; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:379:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 379 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:380:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 380 | LCP[i] = h | mark; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const StringSet&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:483:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 483 | for(TSize hMax = _min(getValueI2((TPair)dec), n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:484:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 484 | LCP[i] = h | mark; | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:113: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h:144:50: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:585:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 585 | public ::std::binary_function< Pair, Pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:128: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In function ‘void seqan::_storeWotdChildren(Index > >&, TSize, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:504:27: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 504 | } else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:506:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 506 | for (TDirSize d = index.sentinelBound - index.sentinelOcc; d != index.sentinelBound; ++d) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:136: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h:149:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 149 | struct RepeatLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:157: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h: In function ‘typename seqan::Iterator >::Type seqan::_upperBoundLcpe(TText&, TSA&, SearchTreeIterator, TQuery&, TDiff_, TDiff_)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1498:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1498 | for(; i && ordEqual(*t, convert(*q)); --i, ++t, ++q) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1501 | if (q == qEnd || t == tEnd || !ordGreater(*t, convert(*q))) { | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seeds.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:29, from /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:30: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_types.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_types.h:154:32: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | struct LessPos : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_types.h:206:35: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 206 | struct LessLength : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:125:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 125 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h: In instantiation of ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /usr/include/c++/14/bits/stl_function.h:117:12: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /usr/include/c++/14/bits/stl_function.h:117:12: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /usr/include/c++/14/bits/stl_function.h:117:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /usr/include/c++/14/bits/stl_function.h:117:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /usr/include/c++/14/bits/stl_function.h:117:12: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /usr/include/c++/14/bits/stl_function.h:117:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /usr/include/c++/14/bits/stl_function.h:117:12: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /usr/include/c++/14/bits/stl_function.h:117:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:718:24: required from here /usr/include/c++/14/bits/stl_function.h:117:12: note: 718 | mainWithOptions(options, String()); /usr/include/c++/14/bits/stl_function.h:117:12: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:688:47: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 688 | Segment finderSegment(finderInfixSeq, | ^~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:93: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:701:74: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 701 | Segment::Type, InfixSegment> patternSegment(patternInfixSeq, | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h: In instantiation of ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:58:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 58 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 59 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 60 | databaseID, databaseStrand, matches, BestLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:718:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 718 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:688:47: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 688 | Segment finderSegment(finderInfixSeq, | ^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:701:74: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 701 | Segment::Type, InfixSegment> patternSegment(patternInfixSeq, | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h: In instantiation of ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:718:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 718 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:688:47: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 688 | Segment finderSegment(finderInfixSeq, | ^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:701:74: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 701 | Segment::Type, InfixSegment> patternSegment(patternInfixSeq, | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h: In instantiation of ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:66:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 66 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 67 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 68 | databaseID, databaseStrand, matches, BandedGlobalExtend()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:718:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 718 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:688:47: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 688 | Segment finderSegment(finderInfixSeq, | ^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:701:74: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 701 | Segment::Type, InfixSegment> patternSegment(patternInfixSeq, | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h: In instantiation of ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:720:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 720 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:688:47: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 688 | Segment finderSegment(finderInfixSeq, | ^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:701:74: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 701 | Segment::Type, InfixSegment> patternSegment(patternInfixSeq, | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h: In instantiation of ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:58:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 58 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 59 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 60 | databaseID, databaseStrand, matches, BestLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:720:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 720 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:688:47: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 688 | Segment finderSegment(finderInfixSeq, | ^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:701:74: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 701 | Segment::Type, InfixSegment> patternSegment(patternInfixSeq, | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h: In instantiation of ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:720:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 720 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:688:47: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 688 | Segment finderSegment(finderInfixSeq, | ^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:701:74: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 701 | Segment::Type, InfixSegment> patternSegment(patternInfixSeq, | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h: In instantiation of ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:66:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 66 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 67 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 68 | databaseID, databaseStrand, matches, BandedGlobalExtend()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:720:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 720 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:688:47: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 688 | Segment finderSegment(finderInfixSeq, | ^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:701:74: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 701 | Segment::Type, InfixSegment> patternSegment(patternInfixSeq, | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h: In instantiation of ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:722:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 722 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:688:47: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 688 | Segment finderSegment(finderInfixSeq, | ^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:701:74: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 701 | Segment::Type, InfixSegment> patternSegment(patternInfixSeq, | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h: In instantiation of ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:58:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 58 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 59 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 60 | databaseID, databaseStrand, matches, BestLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:722:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 722 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:688:47: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 688 | Segment finderSegment(finderInfixSeq, | ^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:701:74: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 701 | Segment::Type, InfixSegment> patternSegment(patternInfixSeq, | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h: In instantiation of ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:722:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 722 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:688:47: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 688 | Segment finderSegment(finderInfixSeq, | ^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:701:74: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 701 | Segment::Type, InfixSegment> patternSegment(patternInfixSeq, | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h: In instantiation of ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:66:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 66 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 67 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 68 | databaseID, databaseStrand, matches, BandedGlobalExtend()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:722:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 722 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:688:47: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 688 | Segment finderSegment(finderInfixSeq, | ^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:701:74: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 701 | Segment::Type, InfixSegment> patternSegment(patternInfixSeq, | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h: In instantiation of ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:724:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 724 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:688:47: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 688 | Segment finderSegment(finderInfixSeq, | ^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:701:74: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 701 | Segment::Type, InfixSegment> patternSegment(patternInfixSeq, | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h: In instantiation of ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:58:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 58 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 59 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 60 | databaseID, databaseStrand, matches, BestLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:724:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 724 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:688:47: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 688 | Segment finderSegment(finderInfixSeq, | ^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:701:74: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 701 | Segment::Type, InfixSegment> patternSegment(patternInfixSeq, | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h: In instantiation of ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:724:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 724 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:688:47: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 688 | Segment finderSegment(finderInfixSeq, | ^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:701:74: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 701 | Segment::Type, InfixSegment> patternSegment(patternInfixSeq, | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h: In instantiation of ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:66:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 66 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 67 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 68 | databaseID, databaseStrand, matches, BandedGlobalExtend()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:724:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 724 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:688:47: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 688 | Segment finderSegment(finderInfixSeq, | ^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:701:74: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 701 | Segment::Type, InfixSegment> patternSegment(patternInfixSeq, | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h: In instantiation of ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:726:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 726 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:688:47: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 688 | Segment finderSegment(finderInfixSeq, | ^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:701:74: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 701 | Segment::Type, InfixSegment> patternSegment(patternInfixSeq, | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h: In instantiation of ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:58:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 58 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 59 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 60 | databaseID, databaseStrand, matches, BestLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:726:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 726 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:688:47: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 688 | Segment finderSegment(finderInfixSeq, | ^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:701:74: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 701 | Segment::Type, InfixSegment> patternSegment(patternInfixSeq, | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h: In instantiation of ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:726:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 726 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:688:47: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 688 | Segment finderSegment(finderInfixSeq, | ^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:701:74: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 701 | Segment::Type, InfixSegment> patternSegment(patternInfixSeq, | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h: In instantiation of ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:66:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 66 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 67 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 68 | databaseID, databaseStrand, matches, BandedGlobalExtend()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:726:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 726 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:688:47: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 688 | Segment finderSegment(finderInfixSeq, | ^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:701:74: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 701 | Segment::Type, InfixSegment> patternSegment(patternInfixSeq, | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h: In instantiation of ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String >; TId = seqan::String >; TTag = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >; TPattern = seqan::Pattern >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = char]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:728:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 728 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:688:47: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 688 | Segment finderSegment(finderInfixSeq, | ^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:701:74: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 701 | Segment::Type, InfixSegment> patternSegment(patternInfixSeq, | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h: In instantiation of ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String >; TId = seqan::String >; TTag = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:58:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >; TPattern = seqan::Pattern >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 58 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 59 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 60 | databaseID, databaseStrand, matches, BestLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = char]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:728:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 728 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:688:47: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 688 | Segment finderSegment(finderInfixSeq, | ^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:701:74: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 701 | Segment::Type, InfixSegment> patternSegment(patternInfixSeq, | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h: In instantiation of ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String >; TId = seqan::String >; TTag = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >; TPattern = seqan::Pattern >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = char]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:728:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 728 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:688:47: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 688 | Segment finderSegment(finderInfixSeq, | ^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:701:74: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 701 | Segment::Type, InfixSegment> patternSegment(patternInfixSeq, | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h: In instantiation of ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String >; TId = seqan::String >; TTag = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:66:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >; TPattern = seqan::Pattern >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 66 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 67 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 68 | databaseID, databaseStrand, matches, BandedGlobalExtend()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = char]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:728:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 728 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:688:47: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 688 | Segment finderSegment(finderInfixSeq, | ^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:701:74: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 701 | Segment::Type, InfixSegment> patternSegment(patternInfixSeq, | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:92: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:152:29: required from ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 152 | data_host(_toPointer(_host)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:688:33: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 688 | Segment finderSegment(finderInfixSeq, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:718:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 718 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h: In instantiation of ‘void _splitAtXDrops(TAlign&, seqan::Score >&, TScoreValue1, TScoreValue2, seqan::String&) [with TAlign = seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TScoreValue = int; TScoreValue1 = int; TScoreValue2 = int]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:624:23: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 624 | _splitAtXDrops(localAlign, scoreMatrix, scoreDropOff, minScore, seedAlignments); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:718:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 718 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:199:24: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 199 | TAlign ali(align); | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:89: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:152:29: required from ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 152 | data_host(_toPointer(_host)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:688:33: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 688 | Segment finderSegment(finderInfixSeq, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:720:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 720 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h: In instantiation of ‘void _splitAtXDrops(TAlign&, seqan::Score >&, TScoreValue1, TScoreValue2, seqan::String&) [with TAlign = seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TScoreValue = int; TScoreValue1 = int; TScoreValue2 = int]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:624:23: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 624 | _splitAtXDrops(localAlign, scoreMatrix, scoreDropOff, minScore, seedAlignments); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:720:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 720 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:199:24: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 199 | TAlign ali(align); | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:152:29: required from ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 152 | data_host(_toPointer(_host)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:688:33: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 688 | Segment finderSegment(finderInfixSeq, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:722:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 722 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h: In instantiation of ‘void _splitAtXDrops(TAlign&, seqan::Score >&, TScoreValue1, TScoreValue2, seqan::String&) [with TAlign = seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TScoreValue = int; TScoreValue1 = int; TScoreValue2 = int]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:624:23: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 624 | _splitAtXDrops(localAlign, scoreMatrix, scoreDropOff, minScore, seedAlignments); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:722:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 722 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:199:24: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 199 | TAlign ali(align); | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:152:29: required from ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 152 | data_host(_toPointer(_host)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:688:33: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 688 | Segment finderSegment(finderInfixSeq, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:724:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 724 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h: In instantiation of ‘void _splitAtXDrops(TAlign&, seqan::Score >&, TScoreValue1, TScoreValue2, seqan::String&) [with TAlign = seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TScoreValue = int; TScoreValue1 = int; TScoreValue2 = int]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:624:23: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 624 | _splitAtXDrops(localAlign, scoreMatrix, scoreDropOff, minScore, seedAlignments); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:724:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 724 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:199:24: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 199 | TAlign ali(align); | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:152:29: required from ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 152 | data_host(_toPointer(_host)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:688:33: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 688 | Segment finderSegment(finderInfixSeq, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:726:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 726 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h: In instantiation of ‘void _splitAtXDrops(TAlign&, seqan::Score >&, TScoreValue1, TScoreValue2, seqan::String&) [with TAlign = seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TScoreValue = int; TScoreValue1 = int; TScoreValue2 = int]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:624:23: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 624 | _splitAtXDrops(localAlign, scoreMatrix, scoreDropOff, minScore, seedAlignments); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:726:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 726 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:199:24: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 199 | TAlign ali(align); | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:152:29: required from ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 152 | data_host(_toPointer(_host)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:688:33: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 688 | Segment finderSegment(finderInfixSeq, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >; TPattern = seqan::Pattern >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = char]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:728:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 728 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h: In instantiation of ‘void _splitAtXDrops(TAlign&, seqan::Score >&, TScoreValue1, TScoreValue2, seqan::String&) [with TAlign = seqan::Align >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TScoreValue = int; TScoreValue1 = int; TScoreValue2 = int]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:624:23: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 624 | _splitAtXDrops(localAlign, scoreMatrix, scoreDropOff, minScore, seedAlignments); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >; TPattern = seqan::Pattern >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = char]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:728:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 728 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:199:24: warning: implicitly-declared ‘seqan::Align >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >::Align(const seqan::Align >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 199 | TAlign ali(align); | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:131:16: required from ‘seqan::String >::String(const seqan::String >&) [with TValue = seqan::SimpleType; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 131 | reserve(*this, std::min(capacity(source), computeGenerousCapacity(source, length(source))), Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:718:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 718 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String, Alloc<> >; TSpec = Dependent >; TShape = Shape, UngappedShape<0> >; TDir = String >; TBucketMap = BucketMap; TStepSize = long unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1593:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1593 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet, Alloc<> >, Dependent > >; TShapeSpec = UngappedShape<0>; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> >, Dependent > >; TSpec = IndexQGram, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Dependent > >; TSpec = IndexQGram, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:159:17: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 159 | indexRequire(qgramIndex, QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:718:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 718 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:55, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:71: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String, Alloc<> >; TSpec = Dependent >; TShape = Shape, UngappedShape<0> >; TDir = String >; TBucketMap = BucketMap; TStepSize = long unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1604:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1604 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet, Alloc<> >, Dependent > >; TShapeSpec = UngappedShape<0>; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> >, Dependent > >; TSpec = IndexQGram, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Dependent > >; TSpec = IndexQGram, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:159:17: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 159 | indexRequire(qgramIndex, QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:718:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 718 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_smart_pointer.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_type.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::_toParameter(const T&) [with T = Segment, Alloc<> >, InfixSegment>; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:252:32: required from ‘typename seqan::Parameter_::Type seqan::host(const Segment&) [with THost_ = Segment, Alloc<> >, InfixSegment>; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 252 | return _toParameter(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:587:88: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 587 | TScore mismatchIndel = (TScore)_max((TScore) ceil(-1/eps) + 1, -(TScore)length(host(infH))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:718:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 718 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_type.h:444:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 444 | return _object; | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:206: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h: In instantiation of ‘void seqan::integrateAlign(Align&, const Align&, const String&) [with TSource1 = String, Alloc<> >; TSpec1 = Tag; TSource2 = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSpec2 = Tag; TPos = long int]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:785:16: required from ‘void integrateAlign(seqan::Align&, const seqan::Align::Type, seqan::InfixSegment>, TSpec2>&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec1 = seqan::Tag; TSpec2 = seqan::Tag; typename seqan::Infix::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 785 | integrateAlign(align, infixAlign, viewPos); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:475:16: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 475 | integrateAlign(align, bandedAlign); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:718:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 718 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h:124:12: warning: implicitly-declared ‘constexpr seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >& seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >::operator=(const seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >&)’ is deprecated [-Wdeprecated-copy] 124 | it = iter(row(align, i), value(viewPos, i)); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:77: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: because ‘seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >’ has user-provided ‘seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps, seqan::Alloc<> >, seqan::Tag >]’ 91 | Iter(Iter const & other) : | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:131:16: required from ‘seqan::String >::String(const seqan::String >&) [with TValue = seqan::SimpleType; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 131 | reserve(*this, std::min(capacity(source), computeGenerousCapacity(source, length(source))), Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:720:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 720 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String, Alloc<> >; TSpec = Dependent >; TShape = Shape, UngappedShape<0> >; TDir = String >; TBucketMap = BucketMap; TStepSize = long unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1593:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1593 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet, Alloc<> >, Dependent > >; TShapeSpec = UngappedShape<0>; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> >, Dependent > >; TSpec = IndexQGram, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Dependent > >; TSpec = IndexQGram, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:159:17: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 159 | indexRequire(qgramIndex, QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:720:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 720 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String, Alloc<> >; TSpec = Dependent >; TShape = Shape, UngappedShape<0> >; TDir = String >; TBucketMap = BucketMap; TStepSize = long unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1604:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1604 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet, Alloc<> >, Dependent > >; TShapeSpec = UngappedShape<0>; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> >, Dependent > >; TSpec = IndexQGram, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Dependent > >; TSpec = IndexQGram, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:159:17: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 159 | indexRequire(qgramIndex, QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:720:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 720 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_type.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::_toParameter(const T&) [with T = Segment, Alloc<> >, InfixSegment>; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:252:32: required from ‘typename seqan::Parameter_::Type seqan::host(const Segment&) [with THost_ = Segment, Alloc<> >, InfixSegment>; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 252 | return _toParameter(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:587:88: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 587 | TScore mismatchIndel = (TScore)_max((TScore) ceil(-1/eps) + 1, -(TScore)length(host(infH))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:720:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 720 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_type.h:444:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 444 | return _object; | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h: In instantiation of ‘void seqan::integrateAlign(Align&, const Align&, const String&) [with TSource1 = String, Alloc<> >; TSpec1 = Tag; TSource2 = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSpec2 = Tag; TPos = long int]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:785:16: required from ‘void integrateAlign(seqan::Align&, const seqan::Align::Type, seqan::InfixSegment>, TSpec2>&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec1 = seqan::Tag; TSpec2 = seqan::Tag; typename seqan::Infix::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 785 | integrateAlign(align, infixAlign, viewPos); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:475:16: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 475 | integrateAlign(align, bandedAlign); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:720:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 720 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h:124:12: warning: implicitly-declared ‘constexpr seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >& seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >::operator=(const seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >&)’ is deprecated [-Wdeprecated-copy] 124 | it = iter(row(align, i), value(viewPos, i)); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: because ‘seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >’ has user-provided ‘seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps, seqan::Alloc<> >, seqan::Tag >]’ 91 | Iter(Iter const & other) : | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:131:16: required from ‘seqan::String >::String(const seqan::String >&) [with TValue = seqan::SimpleType; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 131 | reserve(*this, std::min(capacity(source), computeGenerousCapacity(source, length(source))), Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:722:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 722 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String, Alloc<> >; TSpec = Dependent >; TShape = Shape, UngappedShape<0> >; TDir = String >; TBucketMap = BucketMap; TStepSize = long unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1593:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1593 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet, Alloc<> >, Dependent > >; TShapeSpec = UngappedShape<0>; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> >, Dependent > >; TSpec = IndexQGram, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Dependent > >; TSpec = IndexQGram, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:159:17: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 159 | indexRequire(qgramIndex, QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:722:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 722 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String, Alloc<> >; TSpec = Dependent >; TShape = Shape, UngappedShape<0> >; TDir = String >; TBucketMap = BucketMap; TStepSize = long unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1604:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1604 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet, Alloc<> >, Dependent > >; TShapeSpec = UngappedShape<0>; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> >, Dependent > >; TSpec = IndexQGram, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Dependent > >; TSpec = IndexQGram, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:159:17: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 159 | indexRequire(qgramIndex, QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:722:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 722 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_type.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::_toParameter(const T&) [with T = Segment, Alloc<> >, InfixSegment>; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:252:32: required from ‘typename seqan::Parameter_::Type seqan::host(const Segment&) [with THost_ = Segment, Alloc<> >, InfixSegment>; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 252 | return _toParameter(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:587:88: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 587 | TScore mismatchIndel = (TScore)_max((TScore) ceil(-1/eps) + 1, -(TScore)length(host(infH))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:722:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 722 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_type.h:444:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 444 | return _object; | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h: In instantiation of ‘void seqan::integrateAlign(Align&, const Align&, const String&) [with TSource1 = String, Alloc<> >; TSpec1 = Tag; TSource2 = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSpec2 = Tag; TPos = long int]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:785:16: required from ‘void integrateAlign(seqan::Align&, const seqan::Align::Type, seqan::InfixSegment>, TSpec2>&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec1 = seqan::Tag; TSpec2 = seqan::Tag; typename seqan::Infix::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 785 | integrateAlign(align, infixAlign, viewPos); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:475:16: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 475 | integrateAlign(align, bandedAlign); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:722:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 722 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h:124:12: warning: implicitly-declared ‘constexpr seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >& seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >::operator=(const seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >&)’ is deprecated [-Wdeprecated-copy] 124 | it = iter(row(align, i), value(viewPos, i)); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: because ‘seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >’ has user-provided ‘seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps, seqan::Alloc<> >, seqan::Tag >]’ 91 | Iter(Iter const & other) : | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:131:16: required from ‘seqan::String >::String(const seqan::String >&) [with TValue = seqan::SimpleType; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 131 | reserve(*this, std::min(capacity(source), computeGenerousCapacity(source, length(source))), Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:724:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 724 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String, Alloc<> >; TSpec = Dependent >; TShape = Shape, UngappedShape<0> >; TDir = String >; TBucketMap = BucketMap; TStepSize = long unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1593:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1593 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet, Alloc<> >, Dependent > >; TShapeSpec = UngappedShape<0>; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> >, Dependent > >; TSpec = IndexQGram, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Dependent > >; TSpec = IndexQGram, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:159:17: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 159 | indexRequire(qgramIndex, QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:724:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 724 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String, Alloc<> >; TSpec = Dependent >; TShape = Shape, UngappedShape<0> >; TDir = String >; TBucketMap = BucketMap; TStepSize = long unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1604:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1604 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet, Alloc<> >, Dependent > >; TShapeSpec = UngappedShape<0>; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> >, Dependent > >; TSpec = IndexQGram, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Dependent > >; TSpec = IndexQGram, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:159:17: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 159 | indexRequire(qgramIndex, QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:724:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 724 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_type.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::_toParameter(const T&) [with T = Segment, Alloc<> >, InfixSegment>; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:252:32: required from ‘typename seqan::Parameter_::Type seqan::host(const Segment&) [with THost_ = Segment, Alloc<> >, InfixSegment>; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 252 | return _toParameter(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:587:88: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 587 | TScore mismatchIndel = (TScore)_max((TScore) ceil(-1/eps) + 1, -(TScore)length(host(infH))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:724:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 724 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_type.h:444:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 444 | return _object; | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h: In instantiation of ‘void seqan::integrateAlign(Align&, const Align&, const String&) [with TSource1 = String, Alloc<> >; TSpec1 = Tag; TSource2 = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSpec2 = Tag; TPos = long int]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:785:16: required from ‘void integrateAlign(seqan::Align&, const seqan::Align::Type, seqan::InfixSegment>, TSpec2>&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec1 = seqan::Tag; TSpec2 = seqan::Tag; typename seqan::Infix::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 785 | integrateAlign(align, infixAlign, viewPos); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:475:16: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 475 | integrateAlign(align, bandedAlign); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:724:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 724 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h:124:12: warning: implicitly-declared ‘constexpr seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >& seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >::operator=(const seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >&)’ is deprecated [-Wdeprecated-copy] 124 | it = iter(row(align, i), value(viewPos, i)); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: because ‘seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >’ has user-provided ‘seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps, seqan::Alloc<> >, seqan::Tag >]’ 91 | Iter(Iter const & other) : | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:131:16: required from ‘seqan::String >::String(const seqan::String >&) [with TValue = seqan::SimpleType; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 131 | reserve(*this, std::min(capacity(source), computeGenerousCapacity(source, length(source))), Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:726:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 726 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String, Alloc<> >; TSpec = Dependent >; TShape = Shape, UngappedShape<0> >; TDir = String >; TBucketMap = BucketMap; TStepSize = long unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1593:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1593 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet, Alloc<> >, Dependent > >; TShapeSpec = UngappedShape<0>; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> >, Dependent > >; TSpec = IndexQGram, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Dependent > >; TSpec = IndexQGram, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:159:17: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 159 | indexRequire(qgramIndex, QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:726:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 726 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String, Alloc<> >; TSpec = Dependent >; TShape = Shape, UngappedShape<0> >; TDir = String >; TBucketMap = BucketMap; TStepSize = long unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1604:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1604 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet, Alloc<> >, Dependent > >; TShapeSpec = UngappedShape<0>; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> >, Dependent > >; TSpec = IndexQGram, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Dependent > >; TSpec = IndexQGram, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:159:17: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 159 | indexRequire(qgramIndex, QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:726:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_type.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::_toParameter(const T&) [with T = Segment, Alloc<> >, InfixSegment>; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:252:32: required from ‘typename seqan::Parameter_::Type seqan::host(const Segment&) [with THost_ = Segment, Alloc<> >, InfixSegment>; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 252 | return _toParameter(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:587:88: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 587 | TScore mismatchIndel = (TScore)_max((TScore) ceil(-1/eps) + 1, -(TScore)length(host(infH))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:726:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_type.h:444:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 444 | return _object; | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h: In instantiation of ‘void seqan::integrateAlign(Align&, const Align&, const String&) [with TSource1 = String, Alloc<> >; TSpec1 = Tag; TSource2 = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSpec2 = Tag; TPos = long int]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:785:16: required from ‘void integrateAlign(seqan::Align&, const seqan::Align::Type, seqan::InfixSegment>, TSpec2>&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec1 = seqan::Tag; TSpec2 = seqan::Tag; typename seqan::Infix::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 785 | integrateAlign(align, infixAlign, viewPos); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:475:16: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 475 | integrateAlign(align, bandedAlign); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:726:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 726 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h:124:12: warning: implicitly-declared ‘constexpr seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >& seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >::operator=(const seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >&)’ is deprecated [-Wdeprecated-copy] 124 | it = iter(row(align, i), value(viewPos, i)); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: because ‘seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >’ has user-provided ‘seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps, seqan::Alloc<> >, seqan::Tag >]’ 91 | Iter(Iter const & other) : | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Dependent >; TShape = Shape >; TDir = String >; TBucketMap = BucketMap; TStepSize = long unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1593:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 1593 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Dependent > >; TShapeSpec = UngappedShape<0>; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Dependent > >; TSpec = IndexQGram, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Dependent > >; TSpec = IndexQGram, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:159:17: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 159 | indexRequire(qgramIndex, QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = char]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:728:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 728 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Dependent >; TShape = Shape >; TDir = String >; TBucketMap = BucketMap; TStepSize = long unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1604:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1604 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Dependent > >; TShapeSpec = UngappedShape<0>; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Dependent > >; TSpec = IndexQGram, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Dependent > >; TSpec = IndexQGram, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:159:17: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 159 | indexRequire(qgramIndex, QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = char]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:728:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 728 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_type.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::_toParameter(const T&) [with T = Segment >, InfixSegment>; typename Parameter_::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:252:32: required from ‘typename seqan::Parameter_::Type seqan::host(const Segment&) [with THost_ = Segment >, InfixSegment>; typename Parameter_::Type = Segment >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 252 | return _toParameter(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:587:88: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 587 | TScore mismatchIndel = (TScore)_max((TScore) ceil(-1/eps) + 1, -(TScore)length(host(infH))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >; TPattern = seqan::Pattern >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = char]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:728:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 728 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_type.h:444:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 444 | return _object; | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h: In instantiation of ‘void seqan::integrateAlign(Align&, const Align&, const String&) [with TSource1 = String >; TSpec1 = Tag; TSource2 = Segment >, InfixSegment>, InfixSegment>; TSpec2 = Tag; TPos = long int]’: /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:785:16: required from ‘void integrateAlign(seqan::Align&, const seqan::Align::Type, seqan::InfixSegment>, TSpec2>&) [with TSource = seqan::String >; TSpec1 = seqan::Tag; TSpec2 = seqan::Tag; typename seqan::Infix::Type = seqan::Segment >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 785 | integrateAlign(align, infixAlign, viewPos); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:475:16: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 475 | integrateAlign(align, bandedAlign); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >; TPattern = seqan::Pattern >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = char]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:728:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 728 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h:124:12: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >& seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >::operator=(const seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >&)’ is deprecated [-Wdeprecated-copy] 124 | it = iter(row(align, i), value(viewPos, i)); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: because ‘seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >’ has user-provided ‘seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps >, seqan::Tag >]’ 91 | Iter(Iter const & other) : | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_type.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::_toParameter(T&) [with T = Segment, Alloc<> >, InfixSegment>; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:244:32: required from ‘typename seqan::Parameter_::Type seqan::host(Segment&) [with THost_ = Segment, Alloc<> >, InfixSegment>; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 244 | return _toParameter(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:780:28: required from ‘void integrateAlign(seqan::Align&, const seqan::Align::Type, seqan::InfixSegment>, TSpec2>&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec1 = seqan::Tag; TSpec2 = seqan::Tag; typename seqan::Infix::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 780 | pos += beginPosition(host(source(row(infixAlign, i)))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:475:16: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 475 | integrateAlign(align, bandedAlign); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:718:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 718 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_type.h:437:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 437 | return _object; | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_type.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::_toParameter(T&) [with T = Segment, Alloc<> >, InfixSegment>; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:244:32: required from ‘typename seqan::Parameter_::Type seqan::host(Segment&) [with THost_ = Segment, Alloc<> >, InfixSegment>; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 244 | return _toParameter(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:780:28: required from ‘void integrateAlign(seqan::Align&, const seqan::Align::Type, seqan::InfixSegment>, TSpec2>&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec1 = seqan::Tag; TSpec2 = seqan::Tag; typename seqan::Infix::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 780 | pos += beginPosition(host(source(row(infixAlign, i)))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:475:16: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 475 | integrateAlign(align, bandedAlign); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:720:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 720 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_type.h:437:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 437 | return _object; | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_type.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::_toParameter(T&) [with T = Segment, Alloc<> >, InfixSegment>; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:244:32: required from ‘typename seqan::Parameter_::Type seqan::host(Segment&) [with THost_ = Segment, Alloc<> >, InfixSegment>; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 244 | return _toParameter(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:780:28: required from ‘void integrateAlign(seqan::Align&, const seqan::Align::Type, seqan::InfixSegment>, TSpec2>&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec1 = seqan::Tag; TSpec2 = seqan::Tag; typename seqan::Infix::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 780 | pos += beginPosition(host(source(row(infixAlign, i)))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:475:16: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 475 | integrateAlign(align, bandedAlign); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:722:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 722 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_type.h:437:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 437 | return _object; | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_type.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::_toParameter(T&) [with T = Segment, Alloc<> >, InfixSegment>; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:244:32: required from ‘typename seqan::Parameter_::Type seqan::host(Segment&) [with THost_ = Segment, Alloc<> >, InfixSegment>; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 244 | return _toParameter(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:780:28: required from ‘void integrateAlign(seqan::Align&, const seqan::Align::Type, seqan::InfixSegment>, TSpec2>&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec1 = seqan::Tag; TSpec2 = seqan::Tag; typename seqan::Infix::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 780 | pos += beginPosition(host(source(row(infixAlign, i)))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:475:16: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 475 | integrateAlign(align, bandedAlign); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:724:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 724 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_type.h:437:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 437 | return _object; | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_type.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::_toParameter(T&) [with T = Segment, Alloc<> >, InfixSegment>; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:244:32: required from ‘typename seqan::Parameter_::Type seqan::host(Segment&) [with THost_ = Segment, Alloc<> >, InfixSegment>; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 244 | return _toParameter(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:780:28: required from ‘void integrateAlign(seqan::Align&, const seqan::Align::Type, seqan::InfixSegment>, TSpec2>&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec1 = seqan::Tag; TSpec2 = seqan::Tag; typename seqan::Infix::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 780 | pos += beginPosition(host(source(row(infixAlign, i)))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:475:16: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 475 | integrateAlign(align, bandedAlign); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:726:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 726 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_type.h:437:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 437 | return _object; | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_type.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::_toParameter(T&) [with T = Segment >, InfixSegment>; typename Parameter_::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:244:32: required from ‘typename seqan::Parameter_::Type seqan::host(Segment&) [with THost_ = Segment >, InfixSegment>; typename Parameter_::Type = Segment >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 244 | return _toParameter(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:780:28: required from ‘void integrateAlign(seqan::Align&, const seqan::Align::Type, seqan::InfixSegment>, TSpec2>&) [with TSource = seqan::String >; TSpec1 = seqan::Tag; TSpec2 = seqan::Tag; typename seqan::Infix::Type = seqan::Segment >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 780 | pos += beginPosition(host(source(row(infixAlign, i)))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:475:16: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 475 | integrateAlign(align, bandedAlign); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >; TPattern = seqan::Pattern >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = char]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:728:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 728 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_type.h:437:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 437 | return _object; | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:101: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h: In instantiation of ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >, seqan::Alloc<> >; TValue = const seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TExpand = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >; TTargetSpec = Alloc<>; TValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = String, Alloc<> >, InfixSegment>, InfixSegment>, Tag >, Alloc<> >; TValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:222:28: required from ‘void _splitAtXDrops(TAlign&, seqan::Score >&, TScoreValue1, TScoreValue2, seqan::String&) [with TAlign = seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TScoreValue = int; TScoreValue1 = int; TScoreValue2 = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 222 | appendValue(alignmentString, ali); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:624:23: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 624 | _splitAtXDrops(localAlign, scoreMatrix, scoreDropOff, minScore, seedAlignments); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:718:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 718 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1475:37: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 1475 | typename Value::Type temp_copy(_value); //temp copy because resize could invalidate _value | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h: In instantiation of ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >, seqan::Alloc<> >; TValue = const seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TExpand = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >; TTargetSpec = Alloc<>; TValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = String, Alloc<> >, InfixSegment>, InfixSegment>, Tag >, Alloc<> >; TValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:222:28: required from ‘void _splitAtXDrops(TAlign&, seqan::Score >&, TScoreValue1, TScoreValue2, seqan::String&) [with TAlign = seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TScoreValue = int; TScoreValue1 = int; TScoreValue2 = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 222 | appendValue(alignmentString, ali); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:624:23: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 624 | _splitAtXDrops(localAlign, scoreMatrix, scoreDropOff, minScore, seedAlignments); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:720:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 720 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1475:37: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 1475 | typename Value::Type temp_copy(_value); //temp copy because resize could invalidate _value | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h: In instantiation of ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >, seqan::Alloc<> >; TValue = const seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TExpand = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >; TTargetSpec = Alloc<>; TValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = String, Alloc<> >, InfixSegment>, InfixSegment>, Tag >, Alloc<> >; TValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:222:28: required from ‘void _splitAtXDrops(TAlign&, seqan::Score >&, TScoreValue1, TScoreValue2, seqan::String&) [with TAlign = seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TScoreValue = int; TScoreValue1 = int; TScoreValue2 = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 222 | appendValue(alignmentString, ali); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:624:23: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 624 | _splitAtXDrops(localAlign, scoreMatrix, scoreDropOff, minScore, seedAlignments); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:722:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 722 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1475:37: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 1475 | typename Value::Type temp_copy(_value); //temp copy because resize could invalidate _value | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h: In instantiation of ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >, seqan::Alloc<> >; TValue = const seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TExpand = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >; TTargetSpec = Alloc<>; TValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = String, Alloc<> >, InfixSegment>, InfixSegment>, Tag >, Alloc<> >; TValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:222:28: required from ‘void _splitAtXDrops(TAlign&, seqan::Score >&, TScoreValue1, TScoreValue2, seqan::String&) [with TAlign = seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TScoreValue = int; TScoreValue1 = int; TScoreValue2 = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 222 | appendValue(alignmentString, ali); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:624:23: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 624 | _splitAtXDrops(localAlign, scoreMatrix, scoreDropOff, minScore, seedAlignments); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:724:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 724 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1475:37: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 1475 | typename Value::Type temp_copy(_value); //temp copy because resize could invalidate _value | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h: In instantiation of ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >, seqan::Alloc<> >; TValue = const seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TExpand = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >; TTargetSpec = Alloc<>; TValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = String, Alloc<> >, InfixSegment>, InfixSegment>, Tag >, Alloc<> >; TValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:222:28: required from ‘void _splitAtXDrops(TAlign&, seqan::Score >&, TScoreValue1, TScoreValue2, seqan::String&) [with TAlign = seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TScoreValue = int; TScoreValue1 = int; TScoreValue2 = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 222 | appendValue(alignmentString, ali); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:624:23: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 624 | _splitAtXDrops(localAlign, scoreMatrix, scoreDropOff, minScore, seedAlignments); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:726:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 726 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1475:37: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 1475 | typename Value::Type temp_copy(_value); //temp copy because resize could invalidate _value | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h: In instantiation of ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >, seqan::Alloc<> >; TValue = const seqan::Align >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TExpand = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Align >, InfixSegment>, InfixSegment>, Tag >; TTargetSpec = Alloc<>; TValue = Align >, InfixSegment>, InfixSegment>, Tag >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = String >, InfixSegment>, InfixSegment>, Tag >, Alloc<> >; TValue = Align >, InfixSegment>, InfixSegment>, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:222:28: required from ‘void _splitAtXDrops(TAlign&, seqan::Score >&, TScoreValue1, TScoreValue2, seqan::String&) [with TAlign = seqan::Align >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TScoreValue = int; TScoreValue1 = int; TScoreValue2 = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 222 | appendValue(alignmentString, ali); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:624:23: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 624 | _splitAtXDrops(localAlign, scoreMatrix, scoreDropOff, minScore, seedAlignments); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >; TPattern = seqan::Pattern >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = char]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:728:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 728 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1475:37: warning: implicitly-declared ‘seqan::Align >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >::Align(const seqan::Align >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 1475 | typename Value::Type temp_copy(_value); //temp copy because resize could invalidate _value | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:69: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >; TSource = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >; TValue2 = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >; typename Reference > >::Type = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >; TSpec = Swift >; typename Host >::Type = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:447:13: required from ‘typename seqan::Needle >::Type& seqan::needle(Pattern&) [with TNeedle = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >; TSpec = Swift >; typename Needle >::Type = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 447 | return host(obj); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:698:78: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 698 | TPatternSeq patternSeq = getSequenceByNo(pattern.curSeqNo, indexText(needle(pattern))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:718:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 718 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >& seqan::Index, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >::operator=(const seqan::Index, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:81: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: because ‘seqan::Index, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >’ has user-provided ‘seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::StringSet, seqan::Alloc<> >, seqan::Dependent > >; TShapeSpec = seqan::UngappedShape<0>]’ 159 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h: In instantiation of ‘void seqan::integrateAlign(Align&, const Align&, const String&) [with TSource1 = String, Alloc<> >; TSpec1 = Tag; TSource2 = Segment, Alloc<> >, InfixSegment>; TSpec2 = Tag; TPos = long int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h:154:19: required from ‘void seqan::integrateAlign(Align&, const Align::Type, TSpec2>&) [with TSource = String, Alloc<> >; TSpec1 = Tag; TSpec2 = Tag; typename Infix::Type = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 154 | integrateAlign(align, infixAlign, viewPos); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:620:16: required from ‘void _tracebackLeft(const TMatrix&, const TCoord&, const seqan::Segment&, const seqan::Segment&, TSeed&, TSeed&, TPos, TPos, TAlign&) [with TMatrix = seqan::String >; TCoord = seqan::Pair; TSequence = seqan::String, seqan::Alloc<> >; TSeed = seqan::Seed >; TPos = long unsigned int; TAlign = seqan::Align, seqan::Alloc<> >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 620 | integrateAlign(align, infixAlign); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:753:17: required from ‘bool _bestExtension(const TInfix&, const TInfix&, TSeed&, TSeed&, TPos, TPos, const TScore&, TDir, TSize, TEps, TAlign&) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSeed = seqan::Seed >; TPos = long unsigned int; TDir = seqan::ExtensionDirection; TScore = seqan::Score >; TSize = int; TEps = double; TAlign = seqan::Align, seqan::Alloc<> >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 753 | _tracebackLeft(matrixLeft, (*endPair.i1).coord, infH, infV, seed, seedOld, endLeftH, endLeftV, align); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:860:22: required from ‘bool _extendAndExtract(const seqan::Align, seqan::InfixSegment> >&, TScoreValue, const TScore&, const seqan::Segment::Type, seqan::InfixSegment>&, const seqan::Segment::Type, seqan::InfixSegment>&, seqan::ExtensionDirection, TSize, TEps, TAlign&) [with TScoreValue = int; TScore = seqan::Score >; TSequence = seqan::String, seqan::Alloc<> >; TSize = int; TEps = double; TAlign = seqan::Align, seqan::Alloc<> >, seqan::Tag >; typename seqan::Infix::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 860 | if (!_bestExtension(infixH, infixV, seed, seedOld, alignLen, alignErr, scoreMatrix, direction, minLength, eps, align)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:643:26: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 643 | if (!_extendAndExtract(*aliIt, scoreDropOff, scoreMatrix, infH, infV, direction, minLength, eps, align)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:718:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 718 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h:124:12: warning: implicitly-declared ‘constexpr seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >& seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >::operator=(const seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >&)’ is deprecated [-Wdeprecated-copy] 124 | it = iter(row(align, i), value(viewPos, i)); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: because ‘seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >’ has user-provided ‘seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps, seqan::Alloc<> >, seqan::Tag >]’ 91 | Iter(Iter const & other) : | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >; TSource = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >; TValue2 = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >; typename Reference > >::Type = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >; TSpec = Swift >; typename Host >::Type = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:447:13: required from ‘typename seqan::Needle >::Type& seqan::needle(Pattern&) [with TNeedle = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >; TSpec = Swift >; typename Needle >::Type = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 447 | return host(obj); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:698:78: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 698 | TPatternSeq patternSeq = getSequenceByNo(pattern.curSeqNo, indexText(needle(pattern))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:720:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 720 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >& seqan::Index, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >::operator=(const seqan::Index, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: because ‘seqan::Index, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >’ has user-provided ‘seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::StringSet, seqan::Alloc<> >, seqan::Dependent > >; TShapeSpec = seqan::UngappedShape<0>]’ 159 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h: In instantiation of ‘void seqan::integrateAlign(Align&, const Align&, const String&) [with TSource1 = String, Alloc<> >; TSpec1 = Tag; TSource2 = Segment, Alloc<> >, InfixSegment>; TSpec2 = Tag; TPos = long int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h:154:19: required from ‘void seqan::integrateAlign(Align&, const Align::Type, TSpec2>&) [with TSource = String, Alloc<> >; TSpec1 = Tag; TSpec2 = Tag; typename Infix::Type = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 154 | integrateAlign(align, infixAlign, viewPos); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:620:16: required from ‘void _tracebackLeft(const TMatrix&, const TCoord&, const seqan::Segment&, const seqan::Segment&, TSeed&, TSeed&, TPos, TPos, TAlign&) [with TMatrix = seqan::String >; TCoord = seqan::Pair; TSequence = seqan::String, seqan::Alloc<> >; TSeed = seqan::Seed >; TPos = long unsigned int; TAlign = seqan::Align, seqan::Alloc<> >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 620 | integrateAlign(align, infixAlign); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:753:17: required from ‘bool _bestExtension(const TInfix&, const TInfix&, TSeed&, TSeed&, TPos, TPos, const TScore&, TDir, TSize, TEps, TAlign&) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSeed = seqan::Seed >; TPos = long unsigned int; TDir = seqan::ExtensionDirection; TScore = seqan::Score >; TSize = int; TEps = double; TAlign = seqan::Align, seqan::Alloc<> >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 753 | _tracebackLeft(matrixLeft, (*endPair.i1).coord, infH, infV, seed, seedOld, endLeftH, endLeftV, align); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:860:22: required from ‘bool _extendAndExtract(const seqan::Align, seqan::InfixSegment> >&, TScoreValue, const TScore&, const seqan::Segment::Type, seqan::InfixSegment>&, const seqan::Segment::Type, seqan::InfixSegment>&, seqan::ExtensionDirection, TSize, TEps, TAlign&) [with TScoreValue = int; TScore = seqan::Score >; TSequence = seqan::String, seqan::Alloc<> >; TSize = int; TEps = double; TAlign = seqan::Align, seqan::Alloc<> >, seqan::Tag >; typename seqan::Infix::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 860 | if (!_bestExtension(infixH, infixV, seed, seedOld, alignLen, alignErr, scoreMatrix, direction, minLength, eps, align)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:643:26: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 643 | if (!_extendAndExtract(*aliIt, scoreDropOff, scoreMatrix, infH, infV, direction, minLength, eps, align)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:720:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 720 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h:124:12: warning: implicitly-declared ‘constexpr seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >& seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >::operator=(const seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >&)’ is deprecated [-Wdeprecated-copy] 124 | it = iter(row(align, i), value(viewPos, i)); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: because ‘seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >’ has user-provided ‘seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps, seqan::Alloc<> >, seqan::Tag >]’ 91 | Iter(Iter const & other) : | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >; TSource = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >; TValue2 = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >; typename Reference > >::Type = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >; TSpec = Swift >; typename Host >::Type = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:447:13: required from ‘typename seqan::Needle >::Type& seqan::needle(Pattern&) [with TNeedle = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >; TSpec = Swift >; typename Needle >::Type = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 447 | return host(obj); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:698:78: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 698 | TPatternSeq patternSeq = getSequenceByNo(pattern.curSeqNo, indexText(needle(pattern))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:722:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 722 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >& seqan::Index, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >::operator=(const seqan::Index, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: because ‘seqan::Index, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >’ has user-provided ‘seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::StringSet, seqan::Alloc<> >, seqan::Dependent > >; TShapeSpec = seqan::UngappedShape<0>]’ 159 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h: In instantiation of ‘void seqan::integrateAlign(Align&, const Align&, const String&) [with TSource1 = String, Alloc<> >; TSpec1 = Tag; TSource2 = Segment, Alloc<> >, InfixSegment>; TSpec2 = Tag; TPos = long int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h:154:19: required from ‘void seqan::integrateAlign(Align&, const Align::Type, TSpec2>&) [with TSource = String, Alloc<> >; TSpec1 = Tag; TSpec2 = Tag; typename Infix::Type = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 154 | integrateAlign(align, infixAlign, viewPos); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:620:16: required from ‘void _tracebackLeft(const TMatrix&, const TCoord&, const seqan::Segment&, const seqan::Segment&, TSeed&, TSeed&, TPos, TPos, TAlign&) [with TMatrix = seqan::String >; TCoord = seqan::Pair; TSequence = seqan::String, seqan::Alloc<> >; TSeed = seqan::Seed >; TPos = long unsigned int; TAlign = seqan::Align, seqan::Alloc<> >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 620 | integrateAlign(align, infixAlign); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:753:17: required from ‘bool _bestExtension(const TInfix&, const TInfix&, TSeed&, TSeed&, TPos, TPos, const TScore&, TDir, TSize, TEps, TAlign&) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSeed = seqan::Seed >; TPos = long unsigned int; TDir = seqan::ExtensionDirection; TScore = seqan::Score >; TSize = int; TEps = double; TAlign = seqan::Align, seqan::Alloc<> >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 753 | _tracebackLeft(matrixLeft, (*endPair.i1).coord, infH, infV, seed, seedOld, endLeftH, endLeftV, align); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:860:22: required from ‘bool _extendAndExtract(const seqan::Align, seqan::InfixSegment> >&, TScoreValue, const TScore&, const seqan::Segment::Type, seqan::InfixSegment>&, const seqan::Segment::Type, seqan::InfixSegment>&, seqan::ExtensionDirection, TSize, TEps, TAlign&) [with TScoreValue = int; TScore = seqan::Score >; TSequence = seqan::String, seqan::Alloc<> >; TSize = int; TEps = double; TAlign = seqan::Align, seqan::Alloc<> >, seqan::Tag >; typename seqan::Infix::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 860 | if (!_bestExtension(infixH, infixV, seed, seedOld, alignLen, alignErr, scoreMatrix, direction, minLength, eps, align)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:643:26: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 643 | if (!_extendAndExtract(*aliIt, scoreDropOff, scoreMatrix, infH, infV, direction, minLength, eps, align)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:722:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 722 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h:124:12: warning: implicitly-declared ‘constexpr seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >& seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >::operator=(const seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >&)’ is deprecated [-Wdeprecated-copy] 124 | it = iter(row(align, i), value(viewPos, i)); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: because ‘seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >’ has user-provided ‘seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps, seqan::Alloc<> >, seqan::Tag >]’ 91 | Iter(Iter const & other) : | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >; TSource = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >; TValue2 = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >; typename Reference > >::Type = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >; TSpec = Swift >; typename Host >::Type = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:447:13: required from ‘typename seqan::Needle >::Type& seqan::needle(Pattern&) [with TNeedle = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >; TSpec = Swift >; typename Needle >::Type = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 447 | return host(obj); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:698:78: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 698 | TPatternSeq patternSeq = getSequenceByNo(pattern.curSeqNo, indexText(needle(pattern))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:724:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 724 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >& seqan::Index, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >::operator=(const seqan::Index, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: because ‘seqan::Index, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >’ has user-provided ‘seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::StringSet, seqan::Alloc<> >, seqan::Dependent > >; TShapeSpec = seqan::UngappedShape<0>]’ 159 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h: In instantiation of ‘void seqan::integrateAlign(Align&, const Align&, const String&) [with TSource1 = String, Alloc<> >; TSpec1 = Tag; TSource2 = Segment, Alloc<> >, InfixSegment>; TSpec2 = Tag; TPos = long int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h:154:19: required from ‘void seqan::integrateAlign(Align&, const Align::Type, TSpec2>&) [with TSource = String, Alloc<> >; TSpec1 = Tag; TSpec2 = Tag; typename Infix::Type = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 154 | integrateAlign(align, infixAlign, viewPos); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:620:16: required from ‘void _tracebackLeft(const TMatrix&, const TCoord&, const seqan::Segment&, const seqan::Segment&, TSeed&, TSeed&, TPos, TPos, TAlign&) [with TMatrix = seqan::String >; TCoord = seqan::Pair; TSequence = seqan::String, seqan::Alloc<> >; TSeed = seqan::Seed >; TPos = long unsigned int; TAlign = seqan::Align, seqan::Alloc<> >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 620 | integrateAlign(align, infixAlign); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:753:17: required from ‘bool _bestExtension(const TInfix&, const TInfix&, TSeed&, TSeed&, TPos, TPos, const TScore&, TDir, TSize, TEps, TAlign&) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSeed = seqan::Seed >; TPos = long unsigned int; TDir = seqan::ExtensionDirection; TScore = seqan::Score >; TSize = int; TEps = double; TAlign = seqan::Align, seqan::Alloc<> >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 753 | _tracebackLeft(matrixLeft, (*endPair.i1).coord, infH, infV, seed, seedOld, endLeftH, endLeftV, align); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:860:22: required from ‘bool _extendAndExtract(const seqan::Align, seqan::InfixSegment> >&, TScoreValue, const TScore&, const seqan::Segment::Type, seqan::InfixSegment>&, const seqan::Segment::Type, seqan::InfixSegment>&, seqan::ExtensionDirection, TSize, TEps, TAlign&) [with TScoreValue = int; TScore = seqan::Score >; TSequence = seqan::String, seqan::Alloc<> >; TSize = int; TEps = double; TAlign = seqan::Align, seqan::Alloc<> >, seqan::Tag >; typename seqan::Infix::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 860 | if (!_bestExtension(infixH, infixV, seed, seedOld, alignLen, alignErr, scoreMatrix, direction, minLength, eps, align)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:643:26: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 643 | if (!_extendAndExtract(*aliIt, scoreDropOff, scoreMatrix, infH, infV, direction, minLength, eps, align)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:724:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 724 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h:124:12: warning: implicitly-declared ‘constexpr seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >& seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >::operator=(const seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >&)’ is deprecated [-Wdeprecated-copy] 124 | it = iter(row(align, i), value(viewPos, i)); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: because ‘seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >’ has user-provided ‘seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps, seqan::Alloc<> >, seqan::Tag >]’ 91 | Iter(Iter const & other) : | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >; TSource = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >; TValue2 = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >; typename Reference > >::Type = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >; TSpec = Swift >; typename Host >::Type = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:447:13: required from ‘typename seqan::Needle >::Type& seqan::needle(Pattern&) [with TNeedle = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >; TSpec = Swift >; typename Needle >::Type = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 447 | return host(obj); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:698:78: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 698 | TPatternSeq patternSeq = getSequenceByNo(pattern.curSeqNo, indexText(needle(pattern))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:726:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 726 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >& seqan::Index, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >::operator=(const seqan::Index, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: because ‘seqan::Index, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >’ has user-provided ‘seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::StringSet, seqan::Alloc<> >, seqan::Dependent > >; TShapeSpec = seqan::UngappedShape<0>]’ 159 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h: In instantiation of ‘void seqan::integrateAlign(Align&, const Align&, const String&) [with TSource1 = String, Alloc<> >; TSpec1 = Tag; TSource2 = Segment, Alloc<> >, InfixSegment>; TSpec2 = Tag; TPos = long int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h:154:19: required from ‘void seqan::integrateAlign(Align&, const Align::Type, TSpec2>&) [with TSource = String, Alloc<> >; TSpec1 = Tag; TSpec2 = Tag; typename Infix::Type = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 154 | integrateAlign(align, infixAlign, viewPos); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:620:16: required from ‘void _tracebackLeft(const TMatrix&, const TCoord&, const seqan::Segment&, const seqan::Segment&, TSeed&, TSeed&, TPos, TPos, TAlign&) [with TMatrix = seqan::String >; TCoord = seqan::Pair; TSequence = seqan::String, seqan::Alloc<> >; TSeed = seqan::Seed >; TPos = long unsigned int; TAlign = seqan::Align, seqan::Alloc<> >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 620 | integrateAlign(align, infixAlign); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:753:17: required from ‘bool _bestExtension(const TInfix&, const TInfix&, TSeed&, TSeed&, TPos, TPos, const TScore&, TDir, TSize, TEps, TAlign&) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSeed = seqan::Seed >; TPos = long unsigned int; TDir = seqan::ExtensionDirection; TScore = seqan::Score >; TSize = int; TEps = double; TAlign = seqan::Align, seqan::Alloc<> >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 753 | _tracebackLeft(matrixLeft, (*endPair.i1).coord, infH, infV, seed, seedOld, endLeftH, endLeftV, align); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:860:22: required from ‘bool _extendAndExtract(const seqan::Align, seqan::InfixSegment> >&, TScoreValue, const TScore&, const seqan::Segment::Type, seqan::InfixSegment>&, const seqan::Segment::Type, seqan::InfixSegment>&, seqan::ExtensionDirection, TSize, TEps, TAlign&) [with TScoreValue = int; TScore = seqan::Score >; TSequence = seqan::String, seqan::Alloc<> >; TSize = int; TEps = double; TAlign = seqan::Align, seqan::Alloc<> >, seqan::Tag >; typename seqan::Infix::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 860 | if (!_bestExtension(infixH, infixV, seed, seedOld, alignLen, alignErr, scoreMatrix, direction, minLength, eps, align)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:643:26: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 643 | if (!_extendAndExtract(*aliIt, scoreDropOff, scoreMatrix, infH, infV, direction, minLength, eps, align)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:726:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 726 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h:124:12: warning: implicitly-declared ‘constexpr seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >& seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >::operator=(const seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >&)’ is deprecated [-Wdeprecated-copy] 124 | it = iter(row(align, i), value(viewPos, i)); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: because ‘seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >’ has user-provided ‘seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps, seqan::Alloc<> >, seqan::Tag >]’ 91 | Iter(Iter const & other) : | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, Dependent > >, IndexQGram, Tag > >; TSource = Index >, Dependent > >, IndexQGram, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, Dependent > >, IndexQGram, Tag > >; TValue2 = Index >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, Dependent > >, IndexQGram, Tag > >; typename Reference > >::Type = Index >, Dependent > >, IndexQGram, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, Dependent > >, IndexQGram, Tag > >; TSpec = Swift >; typename Host >::Type = Index >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:447:13: required from ‘typename seqan::Needle >::Type& seqan::needle(Pattern&) [with TNeedle = Index >, Dependent > >, IndexQGram, Tag > >; TSpec = Swift >; typename Needle >::Type = Index >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 447 | return host(obj); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:698:78: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 698 | TPatternSeq patternSeq = getSequenceByNo(pattern.curSeqNo, indexText(needle(pattern))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >; TPattern = seqan::Pattern >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = char]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:728:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 728 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >& seqan::Index >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >::operator=(const seqan::Index >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: because ‘seqan::Index >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >’ has user-provided ‘seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::StringSet >, seqan::Dependent > >; TShapeSpec = seqan::UngappedShape<0>]’ 159 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h: In instantiation of ‘void seqan::integrateAlign(Align&, const Align&, const String&) [with TSource1 = String >; TSpec1 = Tag; TSource2 = Segment >, InfixSegment>; TSpec2 = Tag; TPos = long int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h:154:19: required from ‘void seqan::integrateAlign(Align&, const Align::Type, TSpec2>&) [with TSource = String >; TSpec1 = Tag; TSpec2 = Tag; typename Infix::Type = Segment >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 154 | integrateAlign(align, infixAlign, viewPos); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:620:16: required from ‘void _tracebackLeft(const TMatrix&, const TCoord&, const seqan::Segment&, const seqan::Segment&, TSeed&, TSeed&, TPos, TPos, TAlign&) [with TMatrix = seqan::String >; TCoord = seqan::Pair; TSequence = seqan::String >; TSeed = seqan::Seed >; TPos = long unsigned int; TAlign = seqan::Align >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 620 | integrateAlign(align, infixAlign); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:753:17: required from ‘bool _bestExtension(const TInfix&, const TInfix&, TSeed&, TSeed&, TPos, TPos, const TScore&, TDir, TSize, TEps, TAlign&) [with TInfix = seqan::Segment >, seqan::InfixSegment>; TSeed = seqan::Seed >; TPos = long unsigned int; TDir = seqan::ExtensionDirection; TScore = seqan::Score >; TSize = int; TEps = double; TAlign = seqan::Align >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 753 | _tracebackLeft(matrixLeft, (*endPair.i1).coord, infH, infV, seed, seedOld, endLeftH, endLeftV, align); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:860:22: required from ‘bool _extendAndExtract(const seqan::Align, seqan::InfixSegment> >&, TScoreValue, const TScore&, const seqan::Segment::Type, seqan::InfixSegment>&, const seqan::Segment::Type, seqan::InfixSegment>&, seqan::ExtensionDirection, TSize, TEps, TAlign&) [with TScoreValue = int; TScore = seqan::Score >; TSequence = seqan::String >; TSize = int; TEps = double; TAlign = seqan::Align >, seqan::Tag >; typename seqan::Infix::Type = seqan::Segment >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 860 | if (!_bestExtension(infixH, infixV, seed, seedOld, alignLen, alignErr, scoreMatrix, direction, minLength, eps, align)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:643:26: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 643 | if (!_extendAndExtract(*aliIt, scoreDropOff, scoreMatrix, infH, infV, direction, minLength, eps, align)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >; TPattern = seqan::Pattern >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = char]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:728:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 728 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h:124:12: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >& seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >::operator=(const seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >&)’ is deprecated [-Wdeprecated-copy] 124 | it = iter(row(align, i), value(viewPos, i)); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: because ‘seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >’ has user-provided ‘seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps >, seqan::Tag >]’ 91 | Iter(Iter const & other) : | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >*; TParam = seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >*; TParam = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1481:31: required from ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >, seqan::Alloc<> >; TValue = const seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 1481 | valueConstruct(begin(me, Standard()) + me_length, temp_copy); //??? this should be valueMoveConstruct /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >; TTargetSpec = Alloc<>; TValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = String, Alloc<> >, InfixSegment>, InfixSegment>, Tag >, Alloc<> >; TValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:222:28: required from ‘void _splitAtXDrops(TAlign&, seqan::Score >&, TScoreValue1, TScoreValue2, seqan::String&) [with TAlign = seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TScoreValue = int; TScoreValue1 = int; TScoreValue2 = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 222 | appendValue(alignmentString, ali); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:624:23: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 624 | _splitAtXDrops(localAlign, scoreMatrix, scoreDropOff, minScore, seedAlignments); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:718:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 718 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >*; TParam = seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >*; TParam = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1481:31: required from ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >, seqan::Alloc<> >; TValue = const seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1481 | valueConstruct(begin(me, Standard()) + me_length, temp_copy); //??? this should be valueMoveConstruct /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >; TTargetSpec = Alloc<>; TValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = String, Alloc<> >, InfixSegment>, InfixSegment>, Tag >, Alloc<> >; TValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:222:28: required from ‘void _splitAtXDrops(TAlign&, seqan::Score >&, TScoreValue1, TScoreValue2, seqan::String&) [with TAlign = seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TScoreValue = int; TScoreValue1 = int; TScoreValue2 = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 222 | appendValue(alignmentString, ali); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:624:23: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 624 | _splitAtXDrops(localAlign, scoreMatrix, scoreDropOff, minScore, seedAlignments); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:720:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 720 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >*; TParam = seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >*; TParam = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1481:31: required from ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >, seqan::Alloc<> >; TValue = const seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1481 | valueConstruct(begin(me, Standard()) + me_length, temp_copy); //??? this should be valueMoveConstruct /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >; TTargetSpec = Alloc<>; TValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = String, Alloc<> >, InfixSegment>, InfixSegment>, Tag >, Alloc<> >; TValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:222:28: required from ‘void _splitAtXDrops(TAlign&, seqan::Score >&, TScoreValue1, TScoreValue2, seqan::String&) [with TAlign = seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TScoreValue = int; TScoreValue1 = int; TScoreValue2 = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 222 | appendValue(alignmentString, ali); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:624:23: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 624 | _splitAtXDrops(localAlign, scoreMatrix, scoreDropOff, minScore, seedAlignments); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:722:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 722 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >*; TParam = seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >*; TParam = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1481:31: required from ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >, seqan::Alloc<> >; TValue = const seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1481 | valueConstruct(begin(me, Standard()) + me_length, temp_copy); //??? this should be valueMoveConstruct /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >; TTargetSpec = Alloc<>; TValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = String, Alloc<> >, InfixSegment>, InfixSegment>, Tag >, Alloc<> >; TValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:222:28: required from ‘void _splitAtXDrops(TAlign&, seqan::Score >&, TScoreValue1, TScoreValue2, seqan::String&) [with TAlign = seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TScoreValue = int; TScoreValue1 = int; TScoreValue2 = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 222 | appendValue(alignmentString, ali); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:624:23: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 624 | _splitAtXDrops(localAlign, scoreMatrix, scoreDropOff, minScore, seedAlignments); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:724:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 724 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >*; TParam = seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >*; TParam = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1481:31: required from ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >, seqan::Alloc<> >; TValue = const seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1481 | valueConstruct(begin(me, Standard()) + me_length, temp_copy); //??? this should be valueMoveConstruct /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >; TTargetSpec = Alloc<>; TValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = String, Alloc<> >, InfixSegment>, InfixSegment>, Tag >, Alloc<> >; TValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:222:28: required from ‘void _splitAtXDrops(TAlign&, seqan::Score >&, TScoreValue1, TScoreValue2, seqan::String&) [with TAlign = seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TScoreValue = int; TScoreValue1 = int; TScoreValue2 = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 222 | appendValue(alignmentString, ali); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:624:23: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 624 | _splitAtXDrops(localAlign, scoreMatrix, scoreDropOff, minScore, seedAlignments); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:726:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 726 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Align >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >*; TParam = seqan::Align >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Align >, InfixSegment>, InfixSegment>, Tag >*; TParam = Align >, InfixSegment>, InfixSegment>, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1481:31: required from ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >, seqan::Alloc<> >; TValue = const seqan::Align >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1481 | valueConstruct(begin(me, Standard()) + me_length, temp_copy); //??? this should be valueMoveConstruct /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Align >, InfixSegment>, InfixSegment>, Tag >; TTargetSpec = Alloc<>; TValue = Align >, InfixSegment>, InfixSegment>, Tag >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = String >, InfixSegment>, InfixSegment>, Tag >, Alloc<> >; TValue = Align >, InfixSegment>, InfixSegment>, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:222:28: required from ‘void _splitAtXDrops(TAlign&, seqan::Score >&, TScoreValue1, TScoreValue2, seqan::String&) [with TAlign = seqan::Align >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TScoreValue = int; TScoreValue1 = int; TScoreValue2 = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 222 | appendValue(alignmentString, ali); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:624:23: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 624 | _splitAtXDrops(localAlign, scoreMatrix, scoreDropOff, minScore, seedAlignments); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >; TPattern = seqan::Pattern >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = char]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:728:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 728 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘seqan::Align >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >::Align(const seqan::Align >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>*; TParam = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Segment, Alloc<> >, InfixSegment>, InfixSegment>*; TParam = Segment, Alloc<> >, InfixSegment>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:606:19: required from ‘typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, InfixSegment>, InfixSegment>, Tag >; TValue = Segment, Alloc<> >, InfixSegment>, InfixSegment>; typename Value::Type = Segment, Alloc<> >, InfixSegment>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 606 | valueConstruct(ret, data); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:735:42: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TValue2 = Segment, Alloc<> >, InfixSegment>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 735 | me.data_value = _holderAllocateObject(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Segment, Alloc<> >, InfixSegment>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:614:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 614 | assignSource(row(localAlign, 0), infH); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:718:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 718 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h: In instantiation of ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Alloc<> >; TValue = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TExpand = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Segment, Alloc<> >, InfixSegment>; TTargetSpec = Alloc<>; TValue = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_owner.h:146:16: required from ‘void seqan::appendValue(StringSet >&, const TString2&, Tag) [with TString = Segment, Alloc<> >, InfixSegment>; TString2 = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 146 | appendValue(me.strings, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = StringSet, Alloc<> >, InfixSegment>, Owner<> >; TValue = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:402:13: required from ‘void _fillMatrixBestEndsLeft(TMatrix&, seqan::String&, const seqan::Segment&, const seqan::Segment&, TSeed&, TSeed&, const TScore&) [with TMatrix = seqan::String >; TPossEnd = ExtensionEndPosition; TSequence = seqan::String, seqan::Alloc<> >; TSeed = seqan::Seed >; TScore = seqan::Score >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 402 | appendValue(str, infixH); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:703:26: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:643:26: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 643 | if (!_extendAndExtract(*aliIt, scoreDropOff, scoreMatrix, infH, infV, direction, minLength, eps, align)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:718:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 718 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1475:37: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1475 | typename Value::Type temp_copy(_value); //temp copy because resize could invalidate _value | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>*; TParam = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Segment, Alloc<> >, InfixSegment>, InfixSegment>*; TParam = Segment, Alloc<> >, InfixSegment>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:606:19: required from ‘typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, InfixSegment>, InfixSegment>, Tag >; TValue = Segment, Alloc<> >, InfixSegment>, InfixSegment>; typename Value::Type = Segment, Alloc<> >, InfixSegment>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 606 | valueConstruct(ret, data); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:735:42: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TValue2 = Segment, Alloc<> >, InfixSegment>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 735 | me.data_value = _holderAllocateObject(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Segment, Alloc<> >, InfixSegment>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:614:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 614 | assignSource(row(localAlign, 0), infH); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:720:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 720 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h: In instantiation of ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Alloc<> >; TValue = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TExpand = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Segment, Alloc<> >, InfixSegment>; TTargetSpec = Alloc<>; TValue = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_owner.h:146:16: required from ‘void seqan::appendValue(StringSet >&, const TString2&, Tag) [with TString = Segment, Alloc<> >, InfixSegment>; TString2 = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 146 | appendValue(me.strings, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = StringSet, Alloc<> >, InfixSegment>, Owner<> >; TValue = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:402:13: required from ‘void _fillMatrixBestEndsLeft(TMatrix&, seqan::String&, const seqan::Segment&, const seqan::Segment&, TSeed&, TSeed&, const TScore&) [with TMatrix = seqan::String >; TPossEnd = ExtensionEndPosition; TSequence = seqan::String, seqan::Alloc<> >; TSeed = seqan::Seed >; TScore = seqan::Score >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 402 | appendValue(str, infixH); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:703:26: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:643:26: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 643 | if (!_extendAndExtract(*aliIt, scoreDropOff, scoreMatrix, infH, infV, direction, minLength, eps, align)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:720:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 720 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1475:37: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1475 | typename Value::Type temp_copy(_value); //temp copy because resize could invalidate _value | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>*; TParam = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Segment, Alloc<> >, InfixSegment>, InfixSegment>*; TParam = Segment, Alloc<> >, InfixSegment>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:606:19: required from ‘typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, InfixSegment>, InfixSegment>, Tag >; TValue = Segment, Alloc<> >, InfixSegment>, InfixSegment>; typename Value::Type = Segment, Alloc<> >, InfixSegment>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 606 | valueConstruct(ret, data); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:735:42: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TValue2 = Segment, Alloc<> >, InfixSegment>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 735 | me.data_value = _holderAllocateObject(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Segment, Alloc<> >, InfixSegment>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:614:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 614 | assignSource(row(localAlign, 0), infH); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:722:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 722 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h: In instantiation of ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Alloc<> >; TValue = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TExpand = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Segment, Alloc<> >, InfixSegment>; TTargetSpec = Alloc<>; TValue = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_owner.h:146:16: required from ‘void seqan::appendValue(StringSet >&, const TString2&, Tag) [with TString = Segment, Alloc<> >, InfixSegment>; TString2 = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 146 | appendValue(me.strings, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = StringSet, Alloc<> >, InfixSegment>, Owner<> >; TValue = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:402:13: required from ‘void _fillMatrixBestEndsLeft(TMatrix&, seqan::String&, const seqan::Segment&, const seqan::Segment&, TSeed&, TSeed&, const TScore&) [with TMatrix = seqan::String >; TPossEnd = ExtensionEndPosition; TSequence = seqan::String, seqan::Alloc<> >; TSeed = seqan::Seed >; TScore = seqan::Score >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 402 | appendValue(str, infixH); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:703:26: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:643:26: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 643 | if (!_extendAndExtract(*aliIt, scoreDropOff, scoreMatrix, infH, infV, direction, minLength, eps, align)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:722:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 722 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1475:37: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1475 | typename Value::Type temp_copy(_value); //temp copy because resize could invalidate _value | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>*; TParam = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Segment, Alloc<> >, InfixSegment>, InfixSegment>*; TParam = Segment, Alloc<> >, InfixSegment>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:606:19: required from ‘typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, InfixSegment>, InfixSegment>, Tag >; TValue = Segment, Alloc<> >, InfixSegment>, InfixSegment>; typename Value::Type = Segment, Alloc<> >, InfixSegment>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 606 | valueConstruct(ret, data); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:735:42: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TValue2 = Segment, Alloc<> >, InfixSegment>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 735 | me.data_value = _holderAllocateObject(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Segment, Alloc<> >, InfixSegment>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:614:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 614 | assignSource(row(localAlign, 0), infH); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:724:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 724 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h: In instantiation of ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Alloc<> >; TValue = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TExpand = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Segment, Alloc<> >, InfixSegment>; TTargetSpec = Alloc<>; TValue = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_owner.h:146:16: required from ‘void seqan::appendValue(StringSet >&, const TString2&, Tag) [with TString = Segment, Alloc<> >, InfixSegment>; TString2 = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 146 | appendValue(me.strings, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = StringSet, Alloc<> >, InfixSegment>, Owner<> >; TValue = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:402:13: required from ‘void _fillMatrixBestEndsLeft(TMatrix&, seqan::String&, const seqan::Segment&, const seqan::Segment&, TSeed&, TSeed&, const TScore&) [with TMatrix = seqan::String >; TPossEnd = ExtensionEndPosition; TSequence = seqan::String, seqan::Alloc<> >; TSeed = seqan::Seed >; TScore = seqan::Score >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 402 | appendValue(str, infixH); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:703:26: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:643:26: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 643 | if (!_extendAndExtract(*aliIt, scoreDropOff, scoreMatrix, infH, infV, direction, minLength, eps, align)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:724:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 724 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1475:37: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1475 | typename Value::Type temp_copy(_value); //temp copy because resize could invalidate _value | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>*; TParam = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Segment, Alloc<> >, InfixSegment>, InfixSegment>*; TParam = Segment, Alloc<> >, InfixSegment>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:606:19: required from ‘typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, InfixSegment>, InfixSegment>, Tag >; TValue = Segment, Alloc<> >, InfixSegment>, InfixSegment>; typename Value::Type = Segment, Alloc<> >, InfixSegment>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 606 | valueConstruct(ret, data); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:735:42: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TValue2 = Segment, Alloc<> >, InfixSegment>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 735 | me.data_value = _holderAllocateObject(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Segment, Alloc<> >, InfixSegment>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:614:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 614 | assignSource(row(localAlign, 0), infH); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:726:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 726 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h: In instantiation of ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Alloc<> >; TValue = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TExpand = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Segment, Alloc<> >, InfixSegment>; TTargetSpec = Alloc<>; TValue = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_owner.h:146:16: required from ‘void seqan::appendValue(StringSet >&, const TString2&, Tag) [with TString = Segment, Alloc<> >, InfixSegment>; TString2 = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 146 | appendValue(me.strings, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = StringSet, Alloc<> >, InfixSegment>, Owner<> >; TValue = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:402:13: required from ‘void _fillMatrixBestEndsLeft(TMatrix&, seqan::String&, const seqan::Segment&, const seqan::Segment&, TSeed&, TSeed&, const TScore&) [with TMatrix = seqan::String >; TPossEnd = ExtensionEndPosition; TSequence = seqan::String, seqan::Alloc<> >; TSeed = seqan::Seed >; TScore = seqan::Score >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 402 | appendValue(str, infixH); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:703:26: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:643:26: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 643 | if (!_extendAndExtract(*aliIt, scoreDropOff, scoreMatrix, infH, infV, direction, minLength, eps, align)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:726:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 726 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1475:37: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1475 | typename Value::Type temp_copy(_value); //temp copy because resize could invalidate _value | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>*; TParam = seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Segment >, InfixSegment>, InfixSegment>*; TParam = Segment >, InfixSegment>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:606:19: required from ‘typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder >, InfixSegment>, InfixSegment>, Tag >; TValue = Segment >, InfixSegment>, InfixSegment>; typename Value::Type = Segment >, InfixSegment>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 606 | valueConstruct(ret, data); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:735:42: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Segment >, InfixSegment>, InfixSegment>; TValue2 = Segment >, InfixSegment>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 735 | me.data_value = _holderAllocateObject(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Segment >, InfixSegment>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:614:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 614 | assignSource(row(localAlign, 0), infH); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >; TPattern = seqan::Pattern >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = char]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:728:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 728 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h: In instantiation of ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String >, seqan::InfixSegment>, seqan::Alloc<> >; TValue = const seqan::Segment >, seqan::InfixSegment>; TExpand = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Segment >, InfixSegment>; TTargetSpec = Alloc<>; TValue = Segment >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_owner.h:146:16: required from ‘void seqan::appendValue(StringSet >&, const TString2&, Tag) [with TString = Segment >, InfixSegment>; TString2 = Segment >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 146 | appendValue(me.strings, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = StringSet >, InfixSegment>, Owner<> >; TValue = Segment >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:402:13: required from ‘void _fillMatrixBestEndsLeft(TMatrix&, seqan::String&, const seqan::Segment&, const seqan::Segment&, TSeed&, TSeed&, const TScore&) [with TMatrix = seqan::String >; TPossEnd = ExtensionEndPosition; TSequence = seqan::String >; TSeed = seqan::Seed >; TScore = seqan::Score >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 402 | appendValue(str, infixH); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:703:26: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:643:26: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 643 | if (!_extendAndExtract(*aliIt, scoreDropOff, scoreMatrix, infH, infV, direction, minLength, eps, align)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >; TPattern = seqan::Pattern >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = char]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:728:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 728 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1475:37: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1475 | typename Value::Type temp_copy(_value); //temp copy because resize could invalidate _value | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_iterator.h:65, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:86: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:461:24: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 461 | TConstSeqVIterator seqVBegin = begin(seqV, Rooted()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 732 | return _setUpAndRunAlignment(traceSegments, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, upperDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 733 | algoTag, TracebackConfig_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:96:44: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:718:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 718 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:147:15: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 147 | : data_container(other_.data_container), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter > seqan::operator-(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TIterator = SimpleType*; TSpec = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:477:58: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 477 | TConstSeqHIterator seqHIterEnd = end(seqH, Rooted()) - 1; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 732 | return _setUpAndRunAlignment(traceSegments, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, upperDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 733 | algoTag, TracebackConfig_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:96:44: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:718:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 718 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:686:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 686 | return Iter >(container(left), hostIterator(left) - right); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter > seqan::operator+(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TIterator = SimpleType*; TSpec = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1205:52: required from ‘void seqan::_computeHammingDistance(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TBand = DPBand_ >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1205 | TConstSeqHIterator itH = begin(seqH, Rooted()) + _max(0, _min(seqHlength - 1, upperDiagonal(band))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1421:32: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1421 | _computeHammingDistance(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 732 | return _setUpAndRunAlignment(traceSegments, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, upperDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 733 | algoTag, TracebackConfig_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:96:44: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:718:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 718 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:619:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 619 | return Iter >(container(left), hostIterator(left) + right); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter > seqan::operator+(const Iter >&, TIntegral) [with TContainer = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TIterator = SimpleType*; TSpec = Tag; TIntegral = long int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1206:55: required from ‘void seqan::_computeHammingDistance(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TBand = DPBand_ >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1206 | TConstSeqHIterator itHEnd = begin(seqH, Rooted()) + _min(seqHlength - 1, upperDiagonal(band) + seqVlength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1421:32: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1421 | _computeHammingDistance(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 732 | return _setUpAndRunAlignment(traceSegments, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, upperDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 733 | algoTag, TracebackConfig_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:96:44: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:718:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 718 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:609:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 609 | return Iter >(container(left), hostIterator(left) + right); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:461:24: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 461 | TConstSeqVIterator seqVBegin = begin(seqV, Rooted()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 732 | return _setUpAndRunAlignment(traceSegments, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, upperDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 733 | algoTag, TracebackConfig_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:96:44: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:720:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 720 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:147:15: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 147 | : data_container(other_.data_container), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter > seqan::operator-(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TIterator = SimpleType*; TSpec = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:477:58: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 477 | TConstSeqHIterator seqHIterEnd = end(seqH, Rooted()) - 1; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 732 | return _setUpAndRunAlignment(traceSegments, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, upperDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 733 | algoTag, TracebackConfig_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:96:44: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:720:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 720 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:686:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 686 | return Iter >(container(left), hostIterator(left) - right); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter > seqan::operator+(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TIterator = SimpleType*; TSpec = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1205:52: required from ‘void seqan::_computeHammingDistance(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TBand = DPBand_ >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1205 | TConstSeqHIterator itH = begin(seqH, Rooted()) + _max(0, _min(seqHlength - 1, upperDiagonal(band))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1421:32: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1421 | _computeHammingDistance(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 732 | return _setUpAndRunAlignment(traceSegments, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, upperDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 733 | algoTag, TracebackConfig_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:96:44: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:720:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 720 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:619:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 619 | return Iter >(container(left), hostIterator(left) + right); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter > seqan::operator+(const Iter >&, TIntegral) [with TContainer = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TIterator = SimpleType*; TSpec = Tag; TIntegral = long int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1206:55: required from ‘void seqan::_computeHammingDistance(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TBand = DPBand_ >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1206 | TConstSeqHIterator itHEnd = begin(seqH, Rooted()) + _min(seqHlength - 1, upperDiagonal(band) + seqVlength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1421:32: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1421 | _computeHammingDistance(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 732 | return _setUpAndRunAlignment(traceSegments, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, upperDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 733 | algoTag, TracebackConfig_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:96:44: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:720:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 720 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:609:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 609 | return Iter >(container(left), hostIterator(left) + right); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:461:24: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 461 | TConstSeqVIterator seqVBegin = begin(seqV, Rooted()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 732 | return _setUpAndRunAlignment(traceSegments, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, upperDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 733 | algoTag, TracebackConfig_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:96:44: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:722:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 722 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:147:15: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 147 | : data_container(other_.data_container), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter > seqan::operator-(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TIterator = SimpleType*; TSpec = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:477:58: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 477 | TConstSeqHIterator seqHIterEnd = end(seqH, Rooted()) - 1; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 732 | return _setUpAndRunAlignment(traceSegments, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, upperDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 733 | algoTag, TracebackConfig_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:96:44: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:722:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 722 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:686:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 686 | return Iter >(container(left), hostIterator(left) - right); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter > seqan::operator+(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TIterator = SimpleType*; TSpec = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1205:52: required from ‘void seqan::_computeHammingDistance(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TBand = DPBand_ >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1205 | TConstSeqHIterator itH = begin(seqH, Rooted()) + _max(0, _min(seqHlength - 1, upperDiagonal(band))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1421:32: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1421 | _computeHammingDistance(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 732 | return _setUpAndRunAlignment(traceSegments, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, upperDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 733 | algoTag, TracebackConfig_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:96:44: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:722:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 722 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:619:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 619 | return Iter >(container(left), hostIterator(left) + right); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter > seqan::operator+(const Iter >&, TIntegral) [with TContainer = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TIterator = SimpleType*; TSpec = Tag; TIntegral = long int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1206:55: required from ‘void seqan::_computeHammingDistance(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TBand = DPBand_ >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1206 | TConstSeqHIterator itHEnd = begin(seqH, Rooted()) + _min(seqHlength - 1, upperDiagonal(band) + seqVlength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1421:32: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1421 | _computeHammingDistance(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 732 | return _setUpAndRunAlignment(traceSegments, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, upperDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 733 | algoTag, TracebackConfig_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:96:44: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:722:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 722 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:609:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 609 | return Iter >(container(left), hostIterator(left) + right); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:461:24: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 461 | TConstSeqVIterator seqVBegin = begin(seqV, Rooted()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 732 | return _setUpAndRunAlignment(traceSegments, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, upperDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 733 | algoTag, TracebackConfig_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:96:44: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:724:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 724 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:147:15: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 147 | : data_container(other_.data_container), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter > seqan::operator-(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TIterator = SimpleType*; TSpec = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:477:58: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 477 | TConstSeqHIterator seqHIterEnd = end(seqH, Rooted()) - 1; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 732 | return _setUpAndRunAlignment(traceSegments, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, upperDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 733 | algoTag, TracebackConfig_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:96:44: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:724:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 724 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:686:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 686 | return Iter >(container(left), hostIterator(left) - right); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter > seqan::operator+(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TIterator = SimpleType*; TSpec = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1205:52: required from ‘void seqan::_computeHammingDistance(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TBand = DPBand_ >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1205 | TConstSeqHIterator itH = begin(seqH, Rooted()) + _max(0, _min(seqHlength - 1, upperDiagonal(band))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1421:32: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1421 | _computeHammingDistance(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 732 | return _setUpAndRunAlignment(traceSegments, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, upperDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 733 | algoTag, TracebackConfig_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:96:44: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:724:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 724 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:619:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 619 | return Iter >(container(left), hostIterator(left) + right); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter > seqan::operator+(const Iter >&, TIntegral) [with TContainer = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TIterator = SimpleType*; TSpec = Tag; TIntegral = long int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1206:55: required from ‘void seqan::_computeHammingDistance(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TBand = DPBand_ >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1206 | TConstSeqHIterator itHEnd = begin(seqH, Rooted()) + _min(seqHlength - 1, upperDiagonal(band) + seqVlength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1421:32: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1421 | _computeHammingDistance(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 732 | return _setUpAndRunAlignment(traceSegments, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, upperDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 733 | algoTag, TracebackConfig_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:96:44: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:724:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 724 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:609:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 609 | return Iter >(container(left), hostIterator(left) + right); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:461:24: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 461 | TConstSeqVIterator seqVBegin = begin(seqV, Rooted()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 732 | return _setUpAndRunAlignment(traceSegments, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, upperDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 733 | algoTag, TracebackConfig_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:96:44: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:726:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 726 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:147:15: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 147 | : data_container(other_.data_container), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter > seqan::operator-(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TIterator = SimpleType*; TSpec = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:477:58: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 477 | TConstSeqHIterator seqHIterEnd = end(seqH, Rooted()) - 1; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 732 | return _setUpAndRunAlignment(traceSegments, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, upperDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 733 | algoTag, TracebackConfig_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:96:44: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:726:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 726 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:686:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 686 | return Iter >(container(left), hostIterator(left) - right); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter > seqan::operator+(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TIterator = SimpleType*; TSpec = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1205:52: required from ‘void seqan::_computeHammingDistance(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TBand = DPBand_ >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1205 | TConstSeqHIterator itH = begin(seqH, Rooted()) + _max(0, _min(seqHlength - 1, upperDiagonal(band))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1421:32: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1421 | _computeHammingDistance(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 732 | return _setUpAndRunAlignment(traceSegments, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, upperDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 733 | algoTag, TracebackConfig_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:96:44: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:726:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 726 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:619:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 619 | return Iter >(container(left), hostIterator(left) + right); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter > seqan::operator+(const Iter >&, TIntegral) [with TContainer = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TIterator = SimpleType*; TSpec = Tag; TIntegral = long int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1206:55: required from ‘void seqan::_computeHammingDistance(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TBand = DPBand_ >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1206 | TConstSeqHIterator itHEnd = begin(seqH, Rooted()) + _min(seqHlength - 1, upperDiagonal(band) + seqVlength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1421:32: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1421 | _computeHammingDistance(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 732 | return _setUpAndRunAlignment(traceSegments, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, upperDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 733 | algoTag, TracebackConfig_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:96:44: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:726:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 726 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:609:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 609 | return Iter >(container(left), hostIterator(left) + right); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:461:24: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment >, InfixSegment>, InfixSegment>; TSequenceV = Segment >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 461 | TConstSeqVIterator seqVBegin = begin(seqV, Rooted()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment >, InfixSegment>, InfixSegment>; TSequenceV = Segment >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment >, InfixSegment>, InfixSegment>; TSequenceV = Segment >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment >, InfixSegment>, InfixSegment>; TSequenceV = Segment >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment >, InfixSegment>, InfixSegment>; TSequenceV = Segment >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 732 | return _setUpAndRunAlignment(traceSegments, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, upperDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 733 | algoTag, TracebackConfig_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:96:44: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >; TPattern = seqan::Pattern >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = char]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:728:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 728 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:147:15: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 147 | : data_container(other_.data_container), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter > seqan::operator-(const Iter >&, int) [with TContainer = Segment >, InfixSegment>, InfixSegment>; TIterator = char*; TSpec = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:477:58: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment >, InfixSegment>, InfixSegment>; TSequenceV = Segment >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 477 | TConstSeqHIterator seqHIterEnd = end(seqH, Rooted()) - 1; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment >, InfixSegment>, InfixSegment>; TSequenceV = Segment >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment >, InfixSegment>, InfixSegment>; TSequenceV = Segment >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment >, InfixSegment>, InfixSegment>; TSequenceV = Segment >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment >, InfixSegment>, InfixSegment>; TSequenceV = Segment >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 732 | return _setUpAndRunAlignment(traceSegments, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, upperDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 733 | algoTag, TracebackConfig_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:96:44: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >; TPattern = seqan::Pattern >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = char]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:728:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 728 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:686:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 686 | return Iter >(container(left), hostIterator(left) - right); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter > seqan::operator+(const Iter >&, int) [with TContainer = Segment >, InfixSegment>, InfixSegment>; TIterator = char*; TSpec = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1205:52: required from ‘void seqan::_computeHammingDistance(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment >, InfixSegment>, InfixSegment>; TSequenceV = Segment >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TBand = DPBand_ >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1205 | TConstSeqHIterator itH = begin(seqH, Rooted()) + _max(0, _min(seqHlength - 1, upperDiagonal(band))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1421:32: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment >, InfixSegment>, InfixSegment>; TSequenceV = Segment >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1421 | _computeHammingDistance(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment >, InfixSegment>, InfixSegment>; TSequenceV = Segment >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment >, InfixSegment>, InfixSegment>; TSequenceV = Segment >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment >, InfixSegment>, InfixSegment>; TSequenceV = Segment >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 732 | return _setUpAndRunAlignment(traceSegments, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, upperDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 733 | algoTag, TracebackConfig_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:96:44: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >; TPattern = seqan::Pattern >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = char]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:728:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 728 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:619:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 619 | return Iter >(container(left), hostIterator(left) + right); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter > seqan::operator+(const Iter >&, TIntegral) [with TContainer = Segment >, InfixSegment>, InfixSegment>; TIterator = char*; TSpec = Tag; TIntegral = long int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1206:55: required from ‘void seqan::_computeHammingDistance(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment >, InfixSegment>, InfixSegment>; TSequenceV = Segment >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TBand = DPBand_ >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1206 | TConstSeqHIterator itHEnd = begin(seqH, Rooted()) + _min(seqHlength - 1, upperDiagonal(band) + seqVlength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1421:32: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment >, InfixSegment>, InfixSegment>; TSequenceV = Segment >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1421 | _computeHammingDistance(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment >, InfixSegment>, InfixSegment>; TSequenceV = Segment >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment >, InfixSegment>, InfixSegment>; TSequenceV = Segment >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment >, InfixSegment>, InfixSegment>; TSequenceV = Segment >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 732 | return _setUpAndRunAlignment(traceSegments, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, upperDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 733 | algoTag, TracebackConfig_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:96:44: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >; TPattern = seqan::Pattern >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = char]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:728:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 728 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:609:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 609 | return Iter >(container(left), hostIterator(left) + right); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1481:31: required from ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Alloc<> >; TValue = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1481 | valueConstruct(begin(me, Standard()) + me_length, temp_copy); //??? this should be valueMoveConstruct /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Segment, Alloc<> >, InfixSegment>; TTargetSpec = Alloc<>; TValue = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_owner.h:146:16: required from ‘void seqan::appendValue(StringSet >&, const TString2&, Tag) [with TString = Segment, Alloc<> >, InfixSegment>; TString2 = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 146 | appendValue(me.strings, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = StringSet, Alloc<> >, InfixSegment>, Owner<> >; TValue = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:402:13: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:643:26: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 643 | if (!_extendAndExtract(*aliIt, scoreDropOff, scoreMatrix, infH, infV, direction, minLength, eps, align)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:718:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 718 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:461:41: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 461 | TConstSeqVIterator seqVBegin = begin(seqV, Rooted()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:718:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 718 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 541 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_endDefault(const T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:850:23: required from ‘typename seqan::Iterator >::Type seqan::end(const T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 850 | return _endDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:462:37: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 462 | TConstSeqVIterator seqVEnd = end(seqV, Rooted()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:718:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 718 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:777:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 777 | return TIterator(me, end(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1481:31: required from ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Alloc<> >; TValue = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1481 | valueConstruct(begin(me, Standard()) + me_length, temp_copy); //??? this should be valueMoveConstruct /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Segment, Alloc<> >, InfixSegment>; TTargetSpec = Alloc<>; TValue = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_owner.h:146:16: required from ‘void seqan::appendValue(StringSet >&, const TString2&, Tag) [with TString = Segment, Alloc<> >, InfixSegment>; TString2 = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 146 | appendValue(me.strings, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = StringSet, Alloc<> >, InfixSegment>, Owner<> >; TValue = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:402:13: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:643:26: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 643 | if (!_extendAndExtract(*aliIt, scoreDropOff, scoreMatrix, infH, infV, direction, minLength, eps, align)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:720:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 720 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:461:41: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 461 | TConstSeqVIterator seqVBegin = begin(seqV, Rooted()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:720:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 720 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 541 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_endDefault(const T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:850:23: required from ‘typename seqan::Iterator >::Type seqan::end(const T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 850 | return _endDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:462:37: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 462 | TConstSeqVIterator seqVEnd = end(seqV, Rooted()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:720:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 720 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:777:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 777 | return TIterator(me, end(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1481:31: required from ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Alloc<> >; TValue = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1481 | valueConstruct(begin(me, Standard()) + me_length, temp_copy); //??? this should be valueMoveConstruct /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Segment, Alloc<> >, InfixSegment>; TTargetSpec = Alloc<>; TValue = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_owner.h:146:16: required from ‘void seqan::appendValue(StringSet >&, const TString2&, Tag) [with TString = Segment, Alloc<> >, InfixSegment>; TString2 = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 146 | appendValue(me.strings, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = StringSet, Alloc<> >, InfixSegment>, Owner<> >; TValue = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:402:13: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:643:26: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 643 | if (!_extendAndExtract(*aliIt, scoreDropOff, scoreMatrix, infH, infV, direction, minLength, eps, align)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:722:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 722 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:461:41: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 461 | TConstSeqVIterator seqVBegin = begin(seqV, Rooted()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:722:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 722 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 541 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_endDefault(const T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:850:23: required from ‘typename seqan::Iterator >::Type seqan::end(const T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 850 | return _endDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:462:37: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 462 | TConstSeqVIterator seqVEnd = end(seqV, Rooted()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:722:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 722 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:777:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 777 | return TIterator(me, end(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1481:31: required from ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Alloc<> >; TValue = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1481 | valueConstruct(begin(me, Standard()) + me_length, temp_copy); //??? this should be valueMoveConstruct /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Segment, Alloc<> >, InfixSegment>; TTargetSpec = Alloc<>; TValue = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_owner.h:146:16: required from ‘void seqan::appendValue(StringSet >&, const TString2&, Tag) [with TString = Segment, Alloc<> >, InfixSegment>; TString2 = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 146 | appendValue(me.strings, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = StringSet, Alloc<> >, InfixSegment>, Owner<> >; TValue = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:402:13: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:643:26: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 643 | if (!_extendAndExtract(*aliIt, scoreDropOff, scoreMatrix, infH, infV, direction, minLength, eps, align)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:724:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 724 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:461:41: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 461 | TConstSeqVIterator seqVBegin = begin(seqV, Rooted()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:724:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 724 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 541 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_endDefault(const T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:850:23: required from ‘typename seqan::Iterator >::Type seqan::end(const T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 850 | return _endDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:462:37: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 462 | TConstSeqVIterator seqVEnd = end(seqV, Rooted()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:724:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 724 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:777:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 777 | return TIterator(me, end(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1481:31: required from ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Alloc<> >; TValue = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1481 | valueConstruct(begin(me, Standard()) + me_length, temp_copy); //??? this should be valueMoveConstruct /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Segment, Alloc<> >, InfixSegment>; TTargetSpec = Alloc<>; TValue = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_owner.h:146:16: required from ‘void seqan::appendValue(StringSet >&, const TString2&, Tag) [with TString = Segment, Alloc<> >, InfixSegment>; TString2 = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 146 | appendValue(me.strings, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = StringSet, Alloc<> >, InfixSegment>, Owner<> >; TValue = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:402:13: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:643:26: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 643 | if (!_extendAndExtract(*aliIt, scoreDropOff, scoreMatrix, infH, infV, direction, minLength, eps, align)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:726:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 726 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:461:41: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 461 | TConstSeqVIterator seqVBegin = begin(seqV, Rooted()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:726:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 726 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 541 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_endDefault(const T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:850:23: required from ‘typename seqan::Iterator >::Type seqan::end(const T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 850 | return _endDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:462:37: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 462 | TConstSeqVIterator seqVEnd = end(seqV, Rooted()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:726:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 726 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:777:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 777 | return TIterator(me, end(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Segment >, seqan::InfixSegment>*; TParam = seqan::Segment >, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Segment >, InfixSegment>*; TParam = Segment >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1481:31: required from ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String >, seqan::InfixSegment>, seqan::Alloc<> >; TValue = const seqan::Segment >, seqan::InfixSegment>; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1481 | valueConstruct(begin(me, Standard()) + me_length, temp_copy); //??? this should be valueMoveConstruct /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Segment >, InfixSegment>; TTargetSpec = Alloc<>; TValue = Segment >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_owner.h:146:16: required from ‘void seqan::appendValue(StringSet >&, const TString2&, Tag) [with TString = Segment >, InfixSegment>; TString2 = Segment >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 146 | appendValue(me.strings, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = StringSet >, InfixSegment>, Owner<> >; TValue = Segment >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar_extension.h:402:13: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:643:26: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 643 | if (!_extendAndExtract(*aliIt, scoreDropOff, scoreMatrix, infH, infV, direction, minLength, eps, align)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >; TPattern = seqan::Pattern >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = char]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:728:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 728 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, InfixSegment>, AdaptorIterator > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:461:41: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment >, InfixSegment>, InfixSegment>; TSequenceV = Segment >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 461 | TConstSeqVIterator seqVBegin = begin(seqV, Rooted()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment >, InfixSegment>, InfixSegment>; TSequenceV = Segment >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment >, InfixSegment>, InfixSegment>; TSequenceV = Segment >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment >, InfixSegment>, InfixSegment>; TSequenceV = Segment >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >; TPattern = seqan::Pattern >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = char]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:728:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 728 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 541 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_endDefault(const T&, Rooted) [with T = Segment >, InfixSegment>, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:850:23: required from ‘typename seqan::Iterator >::Type seqan::end(const T&, Tag) [with T = Segment >, InfixSegment>, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, InfixSegment>, AdaptorIterator > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 850 | return _endDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:462:37: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment >, InfixSegment>, InfixSegment>; TSequenceV = Segment >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 462 | TConstSeqVIterator seqVEnd = end(seqV, Rooted()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment >, InfixSegment>, InfixSegment>; TSequenceV = Segment >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment >, InfixSegment>, InfixSegment>; TSequenceV = Segment >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment >, InfixSegment>, InfixSegment>; TSequenceV = Segment >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >; TPattern = seqan::Pattern >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = char]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:728:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 728 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:777:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 777 | return TIterator(me, end(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = Segment, Alloc<> >, InfixSegment>; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:139:40: required from ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 139 | : data_container(_toPointer(container_)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:686:12: required from ‘seqan::Iter > seqan::operator-(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TIterator = SimpleType*; TSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 686 | return Iter >(container(left), hostIterator(left) - right); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:477:58: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 477 | TConstSeqHIterator seqHIterEnd = end(seqH, Rooted()) - 1; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:718:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 718 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = Segment, Alloc<> >, InfixSegment>; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:139:40: required from ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 139 | : data_container(_toPointer(container_)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:686:12: required from ‘seqan::Iter > seqan::operator-(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TIterator = SimpleType*; TSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 686 | return Iter >(container(left), hostIterator(left) - right); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:477:58: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 477 | TConstSeqHIterator seqHIterEnd = end(seqH, Rooted()) - 1; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:720:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 720 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = Segment, Alloc<> >, InfixSegment>; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:139:40: required from ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 139 | : data_container(_toPointer(container_)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:686:12: required from ‘seqan::Iter > seqan::operator-(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TIterator = SimpleType*; TSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 686 | return Iter >(container(left), hostIterator(left) - right); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:477:58: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 477 | TConstSeqHIterator seqHIterEnd = end(seqH, Rooted()) - 1; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:722:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 722 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = Segment, Alloc<> >, InfixSegment>; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:139:40: required from ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 139 | : data_container(_toPointer(container_)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:686:12: required from ‘seqan::Iter > seqan::operator-(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TIterator = SimpleType*; TSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 686 | return Iter >(container(left), hostIterator(left) - right); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:477:58: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 477 | TConstSeqHIterator seqHIterEnd = end(seqH, Rooted()) - 1; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:724:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 724 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = Segment, Alloc<> >, InfixSegment>; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:139:40: required from ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 139 | : data_container(_toPointer(container_)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:686:12: required from ‘seqan::Iter > seqan::operator-(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TIterator = SimpleType*; TSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 686 | return Iter >(container(left), hostIterator(left) - right); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:477:58: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 477 | TConstSeqHIterator seqHIterEnd = end(seqH, Rooted()) - 1; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:726:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 726 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = Segment >, InfixSegment>; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:139:40: required from ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 139 | : data_container(_toPointer(container_)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:686:12: required from ‘seqan::Iter > seqan::operator-(const Iter >&, int) [with TContainer = Segment >, InfixSegment>, InfixSegment>; TIterator = char*; TSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 686 | return Iter >(container(left), hostIterator(left) - right); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:477:58: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment >, InfixSegment>, InfixSegment>; TSequenceV = Segment >, InfixSegment>, InfixSegment>; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 477 | TConstSeqHIterator seqHIterEnd = end(seqH, Rooted()) - 1; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment >, InfixSegment>, InfixSegment>; TSequenceV = Segment >, InfixSegment>, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment >, InfixSegment>, InfixSegment>; TSequenceV = Segment >, InfixSegment>, InfixSegment>; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:466:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, BandedGlobal) [with TInfix = seqan::Segment >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TSource = seqan::String >; TId = seqan::String >; BandedGlobal = const seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 466 | globalAlignment(bandedAlign, scoreMatrix, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:62:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >; TPattern = seqan::Pattern >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 62 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | databaseID, databaseStrand, matches, BandedGlobal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = char]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:728:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 728 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:643:26: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 643 | if (!_extendAndExtract(*aliIt, scoreDropOff, scoreMatrix, infH, infV, direction, minLength, eps, align)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:718:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 718 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Triple; TSource = Triple]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:268:11: required from ‘void seqan::move(TTarget&, TSource&) [with TTarget = Triple; TSource = Triple]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 268 | assign(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1056:13: required from ‘void seqan::_arrayMoveForwardDefault(TSource1, TSource2, TTarget) [with TTarget = Triple*; TSource1 = Triple*; TSource2 = Triple*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1056 | move(*target_begin, *source_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1600:29: required from ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, False) [with TValue = Triple]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1600 | _arrayMoveForwardDefault(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = Triple]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1211:25: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = Triple*; TSource1 = Triple*; TSource2 = Triple*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1211 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1295:22: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:624:23: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 624 | _splitAtXDrops(localAlign, scoreMatrix, scoreDropOff, minScore, seedAlignments); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:54:16: required from ‘bool _stellarOnOne(TSequence&, TId&, TPattern&, bool, TMatches&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > >, seqan::Owner<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 54 | stellar(swiftFinder, swiftPattern, options.epsilon, options.minLength, options.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | options.disableThresh, options.compactThresh, options.numMatches, options.verbose, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | databaseID, databaseStrand, matches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:172:31: required from ‘bool _stellarOnAll(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, StellarOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 172 | if (!_stellarOnOne(databases[i], databaseIDs[i], swiftPattern, true, matches, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:688:23: required from ‘int mainWithOptions(TOptions&, seqan::String) [with TOptions = StellarOptions; TAlphabet = seqan::SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 688 | if (!_stellarOnAll(databases, databaseIDs, queries, queryIDs, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar/stellar.cpp:718:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 718 | mainWithOptions(options, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘constexpr seqan::Triple& seqan::Triple::operator=(const seqan::Triple&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:57: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_base.h:162:12: note: because ‘seqan::Triple’ has user-provided ‘seqan::Triple::Triple(const seqan::Triple&) [with T1 = long unsigned int; T2 = long unsigned int; T3 = int; TSpec = void]’ 162 | inline Triple(Triple const & _p) | ^~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate, seqan::Alloc >, seqan::ScoreAndID, unsigned long, seqan::AllocateStorage_>(seqan::String, seqan::Alloc >&, seqan::ScoreAndID*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, void, unsigned long>(seqan::String, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, seqan::Alloc, unsigned long>(seqan::String, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, seqan::Alloc, unsigned long>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, seqan::Alloc > >(seqan::String, seqan::Alloc >&, seqan::Size, seqan::Alloc > >::Type)seqan::Size, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop, std::less > >(seqan::PriorityType, std::less >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551584’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘seqan::pop, std::less > >(seqan::PriorityType, std::less >, seqan::PriorityHeap>&)void’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ [ 30%] Linking CXX executable ../../../bin/stellar cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/stellar && /usr/bin/cmake -E cmake_link_script CMakeFiles/stellar.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/stellar.dir/stellar.cpp.o -o ../../../bin/stellar -lrt In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551584’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘pop’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 30%] Built target stellar make -f core/apps/tree_recon/CMakeFiles/tree_recon.dir/build.make core/apps/tree_recon/CMakeFiles/tree_recon.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/tree_recon /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/tree_recon /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/tree_recon/CMakeFiles/tree_recon.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f core/apps/tree_recon/CMakeFiles/tree_recon.dir/build.make core/apps/tree_recon/CMakeFiles/tree_recon.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 30%] Building CXX object core/apps/tree_recon/CMakeFiles/tree_recon.dir/tree_recon.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/tree_recon && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT core/apps/tree_recon/CMakeFiles/tree_recon.dir/tree_recon.cpp.o -MF CMakeFiles/tree_recon.dir/tree_recon.cpp.o.d -o CMakeFiles/tree_recon.dir/tree_recon.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/core/apps/tree_recon/tree_recon.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/stream.h:86, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/score.h:42, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa.h:37, from /builddir/build/BUILD/seqan-1.4.2/core/apps/tree_recon/tree_recon.cpp:19: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/core/apps/tree_recon/tree_recon.cpp:18: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa.h:39: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa.h:44: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_base.h:343:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 343 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa.h:48: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_guidetree.h: In function ‘void seqan::njTree(const String&, Graph >&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_guidetree.h:148:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 148 | for (unsigned i = 0; i < length(mat); ++i) | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_guidetree.h:152:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 152 | String<__int64> av; // Average branch length to a combined node | ^~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa.h:49: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h: In function ‘void seqan::read(TFile&, StringSet&, TNames&, FastaAlign)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:416:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 416 | if (atEnd(reader)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:420:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 420 | TString seq; | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h: In function ‘void seqan::read(TFile&, String&, String&, const TNames&, FastaAlign)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:534:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 534 | if (atEnd(reader)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:538:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 538 | String mat; | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h: In function ‘void seqan::read(TFile&, String&, String&, const TStringSet&, const TNames&, MummerLib)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:878:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 878 | if (atEnd(reader)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:880:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 880 | TName seq1; | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h: In function ‘void seqan::read(TFile&, Graph >&, TNames&, NewickFormat)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:985:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 985 | if (atEnd(reader)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:988:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 988 | TVertexDescriptor lastVertex = nilVertex; | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/tree_recon/tree_recon.cpp: In function ‘int main(int, const char**)’: /builddir/build/BUILD/seqan-1.4.2/core/apps/tree_recon/tree_recon.cpp:139:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 139 | if (res != seqan::ArgumentParser::PARSE_OK) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/apps/tree_recon/tree_recon.cpp:143:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 143 | typedef double TDistanceValue; | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/tree_recon/tree_recon.cpp:165:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 165 | else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/tree_recon/tree_recon.cpp:169:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 169 | String names; | ^~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /usr/include/c++/14/string:51: In function ‘std::__copy_move::__copy_m(char const*, char const*, char*)char*’, inlined from ‘std::__copy_move_a2(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:507:30, inlined from ‘std::__copy_move_a1(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:534:42, inlined from ‘std::__copy_move_a(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:541:31, inlined from ‘std::copy(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:637:7, inlined from ‘seqan::_arrayCopyForwardDefault(char const*, char const*, char*)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:855:16, inlined from ‘seqan::arrayCopyForward(char const*, char const*, char*)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:865:29, inlined from ‘seqan::_arrayConstructCopyPointer(char const*, char const*, char*, seqan::True)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21, inlined from ‘seqan::arrayConstructCopy(char const*, char const*, char*)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31, inlined from ‘seqan::AppendString_ >::append_ >, char const>(seqan::String >&, char const&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1368:31, inlined from ‘seqan::append, char, seqan::TagGenerous_>(seqan::String >&, char const&, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42, inlined from ‘seqan::append >, char>(seqan::String >&, char const&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1626:11, inlined from ‘main’ at /builddir/build/BUILD/seqan-1.4.2/core/apps/tree_recon/tree_recon.cpp:199:10: /usr/include/c++/14/bits/stl_algobase.h:438:30: warning: ‘memmove’ forming offset 1 is out of the bounds [0, 1] of object ‘’ with type ‘const char’ [-Warray-bounds=] 438 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/apps/tree_recon/tree_recon.cpp: In function ‘main’: /builddir/build/BUILD/seqan-1.4.2/core/apps/tree_recon/tree_recon.cpp:199:31: note: ‘’ declared here 199 | append(tmpName, '"'); | ~~~~~~^~~~~~~~~~~~~~ [ 32%] Linking CXX executable ../../../bin/tree_recon cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/tree_recon && /usr/bin/cmake -E cmake_link_script CMakeFiles/tree_recon.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/tree_recon.dir/tree_recon.cpp.o -o ../../../bin/tree_recon -lrt In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 32%] Built target tree_recon make -f extras/CMakeFiles/seqan_extras.dir/build.make extras/CMakeFiles/seqan_extras.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/CMakeFiles/seqan_extras.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/CMakeFiles/seqan_extras.dir/build.make extras/CMakeFiles/seqan_extras.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/CMakeFiles/seqan_extras.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 32%] Built target seqan_extras make -f extras/apps/alf/CMakeFiles/alf.dir/build.make extras/apps/alf/CMakeFiles/alf.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/alf /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/alf /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/alf/CMakeFiles/alf.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/alf/CMakeFiles/alf.dir/build.make extras/apps/alf/CMakeFiles/alf.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 32%] Building CXX object extras/apps/alf/CMakeFiles/alf.dir/alf.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/alf && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/alf/CMakeFiles/alf.dir/alf.cpp.o -MF CMakeFiles/alf.dir/alf.cpp.o.d -o CMakeFiles/alf.dir/alf.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/alf/alf.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/alf/alf.cpp:46: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/alf/alf.cpp:42: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/statistics.h:40, from /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/alignment_free.h:47, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/alf/alf.cpp:49: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:62, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:40, from /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/statistics.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:45:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:54:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:63:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 63 | struct filterI3 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:401:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 401 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:507:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 507 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:78: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:42:48: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public ::std::binary_function < PageBucket, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:57:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:257:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 257 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:372:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 372 | struct insertBucket : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_set.h:373:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:404:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 404 | public::std::binary_function // functor for operator> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:744:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 744 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:760:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 760 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:80: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:854:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 854 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:902:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 902 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:970:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 970 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1039:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1039 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1073:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1073 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1121:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1121 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2093:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2093 | struct _qgramComp : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2112:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2112 | public ::std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:46:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 46 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:85:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 85 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:96: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:98:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 98 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:112:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 112 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:127:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:144:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:154:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:99: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:110:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 110 | public ::std::binary_function < SkewDCStream, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:143:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 143 | public ::std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:100: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:99:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 99 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:118:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:132:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 132 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:154:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:175:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 175 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:185:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 185 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:103: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:57:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:97:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 97 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:141:29: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:109: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:59:42: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:164:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, KasaiOriginal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:312:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 312 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:313:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 313 | LCP[isa - 1] = h; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:379:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 379 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:380:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 380 | LCP[i] = h | mark; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const StringSet&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:483:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 483 | for(TSize hMax = _min(getValueI2((TPair)dec), n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:484:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 484 | LCP[i] = h | mark; | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:113: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h:144:50: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:585:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 585 | public ::std::binary_function< Pair, Pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:128: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In function ‘void seqan::_storeWotdChildren(Index > >&, TSize, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:504:27: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 504 | } else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:506:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 506 | for (TDirSize d = index.sentinelBound - index.sentinelOcc; d != index.sentinelBound; ++d) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:136: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h:149:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 149 | struct RepeatLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:157: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h: In function ‘typename seqan::Iterator >::Type seqan::_upperBoundLcpe(TText&, TSA&, SearchTreeIterator, TQuery&, TDiff_, TDiff_)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1498:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1498 | for(; i && ordEqual(*t, convert(*q)); --i, ++t, ++q) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1501 | if (q == qEnd || t == tEnd || !ordGreater(*t, convert(*q))) { | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/alf/alf.cpp:44: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1444:21: required from ‘void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1444 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1465:31: required from ‘void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1465 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:849:31: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String, seqan::Alloc<> >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 849 | arrayConstructMove(old_array, old_array + start, seq_array); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: required from ‘typename seqan::Size >::Type seqan::_clearSpace(String&, TSize, TPosition, TPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long unsigned int; TPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1014 | return ClearSpaceStringBase_ >::_clearSpace_(me, size, pos_begin, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1367:67: required from ‘static void seqan::AppendString_::append_(TTarget&, TSource&) [with TTarget = seqan::String, seqan::Alloc<> >; TSource = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1367 | typename Size::Type part_length = _clearSpace(target, length(source), target_length, target_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42: required from ‘void seqan::append(String&, const TSource&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1421 | AppendString_ >::append_(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1626:11: required from ‘void seqan::append(TTarget&, const TSource&) [with TTarget = String, Alloc<> >; TSource = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1626 | append(target, source, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1980:11: required from ‘seqan::String& seqan::operator+=(String&, const TRight&) [with TLeftValue = SimpleType; TLeftSpec = Alloc<>; TRight = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1980 | append(left, right); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/alignment_free/kmer_functions.h:1292:66: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1292 | sequenceCut += infix(sequence, position(itSeq), i); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1589:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1589 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45: required from ‘static typename seqan::Size::Type seqan::_Resize_String::resize_(T&, typename seqan::Size::Type) [with T = seqan::String, seqan::Alloc<> >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1887 | TSize new_capacity = reserve(me, new_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50: required from ‘typename seqan::Size >::Type seqan::resize(String&, TSize, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1952 | return _Resize_String >::resize_(me, new_length); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18: required from ‘typename seqan::Size::Type seqan::resize(T&, TSize) [with T = String, Alloc<> >; TSize = unsigned int; typename Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2143 | return resize(me, new_length, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_base.h:1051:9: required from ‘void seqan::unhash(TString&, THash, unsigned int) [with TString = String, Alloc<> >; THash = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1051 | resize(result, q); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/alignment_free/af_n2.h:60:15: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 60 | unhash(w, i, k); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:131:16: required from ‘seqan::String >::String(const seqan::String >&) [with TValue = seqan::SimpleType; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 131 | reserve(*this, std::min(capacity(source), computeGenerousCapacity(source, length(source))), Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1475:37: required from ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >, seqan::Alloc<> >; TValue = const seqan::String, seqan::Alloc<> >; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1475 | typename Value::Type temp_copy(_value); //temp copy because resize could invalidate _value /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = String, Alloc<> >; TTargetSpec = Alloc<>; TValue = String, Alloc<> >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_owner.h:146:16: required from ‘void seqan::appendValue(StringSet >&, const TString2&, Tag) [with TString = String, Alloc<> >; TString2 = String, Alloc<> >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 146 | appendValue(me.strings, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/alf/alf.cpp:181:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 181 | appendValue(mySequenceSet, sequenceTmp, Generous()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String, Alloc<> >; TSpec = Owner<>; TShape = Shape, UngappedShape<0> >; TDir = String >; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1593:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index, Alloc<> > >, IndexQGram > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1593 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet, Alloc<> > >; TShapeSpec = UngappedShape<0>; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexQGram >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexQGram >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/statistics/statistics_markov_model.h:303:15: required from ‘void seqan::MarkovModel::build(const seqan::StringSet >&) [with TAlphabet = seqan::SimpleType; TFloat = double; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 303 | indexRequire(ind, QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/statistics/statistics_markov_model.h:866:10: required from ‘void seqan::buildMarkovModel(MarkovModel&, StringSet >&) [with TAlphabet = SimpleType; TFloat = double; TSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 866 | mm.build(stringSet); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/alignment_free/kmer_functions.h:395:21: required from ‘void seqan::countKmers(String >&, MarkovModel&, const TString&, unsigned int) [with TString = String, Alloc<> >; TAlphabetBG = SimpleType; TValue = double]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 395 | buildMarkovModel(backgroundModel, seqSetMM); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/alignment_free/af_d2z.h:135:23: required from ‘void seqan::_alignmentFreeComparison(Matrix&, const TStringSet&, const AFScore >&) [with TStringSet = StringSet, Alloc<> > >; TValue = double]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 135 | countKmers(*itKmerCounts, *itMM, *itSeqSet, score.kmerSize); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/alignment_free/alignment_free_comparison.h:151:29: required from ‘void seqan::alignmentFreeComparison(Matrix&, const TStringSet&, const TComparisonMethod&) [with TStringSet = StringSet, Alloc<> > >; TValue = double; TComparisonMethod = AFScore >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 151 | _alignmentFreeComparison(scoreMatrix, sequenceSet, comparisonMethod); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/alf/alf.cpp:195:32: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 195 | alignmentFreeComparison(myMatrix, mySequenceSet, myScoreD2z); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:55, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:71: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String, Alloc<> >; TSpec = Owner<>; TShape = Shape, UngappedShape<0> >; TDir = String >; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1604:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index, Alloc<> > >, IndexQGram > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1604 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet, Alloc<> > >; TShapeSpec = UngappedShape<0>; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexQGram >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexQGram >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/statistics/statistics_markov_model.h:303:15: required from ‘void seqan::MarkovModel::build(const seqan::StringSet >&) [with TAlphabet = seqan::SimpleType; TFloat = double; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 303 | indexRequire(ind, QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/statistics/statistics_markov_model.h:866:10: required from ‘void seqan::buildMarkovModel(MarkovModel&, StringSet >&) [with TAlphabet = SimpleType; TFloat = double; TSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 866 | mm.build(stringSet); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/alignment_free/kmer_functions.h:395:21: required from ‘void seqan::countKmers(String >&, MarkovModel&, const TString&, unsigned int) [with TString = String, Alloc<> >; TAlphabetBG = SimpleType; TValue = double]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 395 | buildMarkovModel(backgroundModel, seqSetMM); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/alignment_free/af_d2z.h:135:23: required from ‘void seqan::_alignmentFreeComparison(Matrix&, const TStringSet&, const AFScore >&) [with TStringSet = StringSet, Alloc<> > >; TValue = double]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 135 | countKmers(*itKmerCounts, *itMM, *itSeqSet, score.kmerSize); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/alignment_free/alignment_free_comparison.h:151:29: required from ‘void seqan::alignmentFreeComparison(Matrix&, const TStringSet&, const TComparisonMethod&) [with TStringSet = StringSet, Alloc<> > >; TValue = double; TComparisonMethod = AFScore >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 151 | _alignmentFreeComparison(scoreMatrix, sequenceSet, comparisonMethod); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/alf/alf.cpp:195:32: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 195 | alignmentFreeComparison(myMatrix, mySequenceSet, myScoreD2z); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveBackwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1641:30: required from ‘void seqan::arrayMoveBackward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1641 | _arrayMoveBackwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1213:26: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = SimpleType*; TSource1 = SimpleType*; TSource2 = SimpleType*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1213 | arrayMoveBackward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1660:14: required from ‘void seqan::_arrayClearSpacePointer(TValue*, size_t, size_t, size_t, const True&) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1660 | arrayMove(array_begin + keep_from, array_begin + array_length, array_begin + move_to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1681:28: required from ‘void seqan::arrayClearSpace(TValue*, size_t, size_t, size_t) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1681 | _arrayClearSpacePointer(array_begin, array_length, keep_from, move_to, typename IsSimple::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:856:28: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String, seqan::Alloc<> >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 856 | arrayClearSpace(seq_array + start, old_length - start, removed_size, size); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: required from ‘typename seqan::Size >::Type seqan::_clearSpace(String&, TSize, TPosition, TPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long unsigned int; TPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1014 | return ClearSpaceStringBase_ >::_clearSpace_(me, size, pos_begin, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1367:67: required from ‘static void seqan::AppendString_::append_(TTarget&, TSource&) [with TTarget = seqan::String, seqan::Alloc<> >; TSource = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1367 | typename Size::Type part_length = _clearSpace(target, length(source), target_length, target_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42: required from ‘void seqan::append(String&, const TSource&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1421 | AppendString_ >::append_(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1626:11: required from ‘void seqan::append(TTarget&, const TSource&) [with TTarget = String, Alloc<> >; TSource = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1626 | append(target, source, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1980:11: required from ‘seqan::String& seqan::operator+=(String&, const TRight&) [with TLeftValue = SimpleType; TLeftSpec = Alloc<>; TRight = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1980 | append(left, right); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/alignment_free/kmer_functions.h:1292:66: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1292 | sequenceCut += infix(sequence, position(itSeq), i); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1621:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1621 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1444:21: required from ‘void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1444 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1465:31: required from ‘void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1465 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:849:31: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String, seqan::Alloc<> >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 849 | arrayConstructMove(old_array, old_array + start, seq_array); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: required from ‘typename seqan::Size >::Type seqan::_clearSpace(String&, TSize, TPosition, TPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long unsigned int; TPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1014 | return ClearSpaceStringBase_ >::_clearSpace_(me, size, pos_begin, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1367:67: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1626:11: required from ‘void seqan::append(TTarget&, const TSource&) [with TTarget = String, Alloc<> >; TSource = String, Alloc<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1626 | append(target, source, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/alignment_free/kmer_functions.h:850:15: required from ‘void seqan::calculateCovariance(TValue&, const String&, const String&, MarkovModel&, int) [with TValue = double; TSpec = Alloc<>; TAlphabet = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 850 | append(clump, word2); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/alignment_free/af_n2.h:549:48: required from ‘void seqan::_standardiseCounts(TString&, const String >&, const StringSet > >&, const TSequence&, const AFScore >&) [with TString = String; TSequence = String, Alloc<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 549 | calculateCovariance(value(covarianceMatrix, wordColHash, wordRowHash), wMM1, wMM2, backgroundModel, (len1 + score.kmerSize - 1)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/alignment_free/af_n2.h:179:27: required from ‘void seqan::_alignmentFreeComparison(Matrix&, const TStringSet&, const AFScore >&) [with TValue = double; TStringSet = StringSet, Alloc<> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 179 | _standardiseCounts(*itStandardisedKmerCounts, revComIndex, kmerNeighbourhood, *itSeqSet, score); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/alignment_free/alignment_free_comparison.h:151:29: required from ‘void seqan::alignmentFreeComparison(Matrix&, const TStringSet&, const TComparisonMethod&) [with TStringSet = StringSet, Alloc<> > >; TValue = double; TComparisonMethod = AFScore >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 151 | _alignmentFreeComparison(scoreMatrix, sequenceSet, comparisonMethod); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/alf/alf.cpp:205:32: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 205 | alignmentFreeComparison(myMatrix, mySequenceSet, myScoreN2); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1589:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1589 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveBackwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1641:30: required from ‘void seqan::arrayMoveBackward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1641 | _arrayMoveBackwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1213:26: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = SimpleType*; TSource1 = SimpleType*; TSource2 = SimpleType*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1213 | arrayMoveBackward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1660:14: required from ‘void seqan::_arrayClearSpacePointer(TValue*, size_t, size_t, size_t, const True&) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1660 | arrayMove(array_begin + keep_from, array_begin + array_length, array_begin + move_to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1681:28: required from ‘void seqan::arrayClearSpace(TValue*, size_t, size_t, size_t) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1681 | _arrayClearSpacePointer(array_begin, array_length, keep_from, move_to, typename IsSimple::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:856:28: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String, seqan::Alloc<> >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 856 | arrayClearSpace(seq_array + start, old_length - start, removed_size, size); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1626:11: required from ‘void seqan::append(TTarget&, const TSource&) [with TTarget = String, Alloc<> >; TSource = String, Alloc<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1626 | append(target, source, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/alignment_free/kmer_functions.h:850:15: required from ‘void seqan::calculateCovariance(TValue&, const String&, const String&, MarkovModel&, int) [with TValue = double; TSpec = Alloc<>; TAlphabet = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 850 | append(clump, word2); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/alignment_free/af_n2.h:549:48: required from ‘void seqan::_standardiseCounts(TString&, const String >&, const StringSet > >&, const TSequence&, const AFScore >&) [with TString = String; TSequence = String, Alloc<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 549 | calculateCovariance(value(covarianceMatrix, wordColHash, wordRowHash), wMM1, wMM2, backgroundModel, (len1 + score.kmerSize - 1)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/alignment_free/af_n2.h:179:27: required from ‘void seqan::_alignmentFreeComparison(Matrix&, const TStringSet&, const AFScore >&) [with TValue = double; TStringSet = StringSet, Alloc<> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 179 | _standardiseCounts(*itStandardisedKmerCounts, revComIndex, kmerNeighbourhood, *itSeqSet, score); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/alignment_free/alignment_free_comparison.h:151:29: required from ‘void seqan::alignmentFreeComparison(Matrix&, const TStringSet&, const TComparisonMethod&) [with TStringSet = StringSet, Alloc<> > >; TValue = double; TComparisonMethod = AFScore >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 151 | _alignmentFreeComparison(scoreMatrix, sequenceSet, comparisonMethod); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/alf/alf.cpp:205:32: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 205 | alignmentFreeComparison(myMatrix, mySequenceSet, myScoreN2); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1621:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1621 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ [ 32%] Linking CXX executable ../../../bin/alf cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/alf && /usr/bin/cmake -E cmake_link_script CMakeFiles/alf.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/alf.dir/alf.cpp.o -o ../../../bin/alf -lrt In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 32%] Built target alf make -f extras/apps/breakpoint_calculator/CMakeFiles/breakpoint_calculator.dir/build.make extras/apps/breakpoint_calculator/CMakeFiles/breakpoint_calculator.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/breakpoint_calculator /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/breakpoint_calculator /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/breakpoint_calculator/CMakeFiles/breakpoint_calculator.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/breakpoint_calculator/CMakeFiles/breakpoint_calculator.dir/build.make extras/apps/breakpoint_calculator/CMakeFiles/breakpoint_calculator.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 32%] Building CXX object extras/apps/breakpoint_calculator/CMakeFiles/breakpoint_calculator.dir/breakpoint_calculator.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/breakpoint_calculator && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/breakpoint_calculator/CMakeFiles/breakpoint_calculator.dir/breakpoint_calculator.cpp.o -MF CMakeFiles/breakpoint_calculator.dir/breakpoint_calculator.cpp.o.d -o CMakeFiles/breakpoint_calculator.dir/breakpoint_calculator.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/breakpoint_calculator/breakpoint_calculator.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/breakpoint_calculator/breakpoint_calculator.cpp:23: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:44: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/breakpoint_calculator/parse_alignment.h:27, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/breakpoint_calculator/breakpoint_calculator.h:34, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/breakpoint_calculator/breakpoint_calculator.cpp:25: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ [ 32%] Linking CXX executable ../../../bin/breakpoint_calculator cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/breakpoint_calculator && /usr/bin/cmake -E cmake_link_script CMakeFiles/breakpoint_calculator.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/breakpoint_calculator.dir/breakpoint_calculator.cpp.o -o ../../../bin/breakpoint_calculator -lrt In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toHtml’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/tool_doc.h:284:34: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551568’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘_toHtml’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 32%] Built target breakpoint_calculator make -f extras/apps/bs_tools/CMakeFiles/bisar.dir/build.make extras/apps/bs_tools/CMakeFiles/bisar.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/bs_tools /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/bs_tools/CMakeFiles/bisar.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/bs_tools/CMakeFiles/bisar.dir/build.make extras/apps/bs_tools/CMakeFiles/bisar.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 32%] Building CXX object extras/apps/bs_tools/CMakeFiles/bisar.dir/bisar.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/bs_tools && /usr/bin/g++ -DSEQAN_DATE=\"\" -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/bs_tools/CMakeFiles/bisar.dir/bisar.cpp.o -MF CMakeFiles/bisar.dir/bisar.cpp.o.d -o CMakeFiles/bisar.dir/bisar.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar.cpp:39: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar.cpp:37: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar.cpp:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar.cpp:46: /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar_score.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar_score.h:28:57: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 28 | struct FunctorDna5OrdValueComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:81: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h: In instantiation of ‘typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_base.h:297:17: required from ‘typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /usr/include/c++/14/bits/stl_function.h:117:12: note: 297 | return value(me); /usr/include/c++/14/bits/stl_function.h:117:12: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar.h:157:26: required from ‘int reAlign4(TReadGaps&, TContigGaps&, TFragmentStore&, TId&, TBsScoreCTLeft&, TBsScoreCTRight&, TBsScoreGALeft&, TBsScoreGARight&, TOptions&) [with TReadGaps = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TContigGaps = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TFragmentStore = seqan::FragmentStore; TId = unsigned int; TBsScoreCTLeft = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TBsScoreCTRight = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TBsScoreGALeft = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TBsScoreGARight = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TOptions = AppOptions]’ /usr/include/c++/14/bits/stl_function.h:117:12: note: 157 | else if (*itR == *itC || (*itR == 'T' && *itC == 'C')) ++matches; /usr/include/c++/14/bits/stl_function.h:117:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar.h:1289:17: required from ‘bool postProcessMain(TOptions&, const TModel&) [with TOptions = AppOptions; TModel = seqan::Tag]’ /usr/include/c++/14/bits/stl_function.h:117:12: note: 1289 | reAlign4(readGaps, contigGaps, store, id, scoringSchemeCTLeft, scoringSchemeCTRight, scoringSchemeGALeft, scoringSchemeGARight, options); /usr/include/c++/14/bits/stl_function.h:117:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar.cpp:294:24: required from here /usr/include/c++/14/bits/stl_function.h:117:12: note: 294 | postProcessMain(options, BsNonSimple()); /usr/include/c++/14/bits/stl_function.h:117:12: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:211:12: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 211 | return TProxy(it); | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_iterator.h:75, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:86: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: initializing argument 1 of ‘seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]’ 99 | Proxy(TIterator const _it) | ~~~~~~~~~~~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h: In instantiation of ‘seqan::Proxy >::Proxy(const seqan::Proxy >&) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_base.h:297:17: required from ‘typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 297 | return value(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar.h:157:26: required from ‘int reAlign4(TReadGaps&, TContigGaps&, TFragmentStore&, TId&, TBsScoreCTLeft&, TBsScoreCTRight&, TBsScoreGALeft&, TBsScoreGARight&, TOptions&) [with TReadGaps = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TContigGaps = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TFragmentStore = seqan::FragmentStore; TId = unsigned int; TBsScoreCTLeft = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TBsScoreCTRight = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TBsScoreGALeft = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TBsScoreGARight = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TOptions = AppOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 157 | else if (*itR == *itC || (*itR == 'T' && *itC == 'C')) ++matches; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar.h:1289:17: required from ‘bool postProcessMain(TOptions&, const TModel&) [with TOptions = AppOptions; TModel = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 1289 | reAlign4(readGaps, contigGaps, store, id, scoringSchemeCTLeft, scoringSchemeCTRight, scoringSchemeGALeft, scoringSchemeGARight, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar.cpp:294:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 294 | postProcessMain(options, BsNonSimple()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:106:15: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 106 | : data_iterator(_other.data_iterator) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h: In instantiation of ‘typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = const Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_base.h:297:17: required from ‘typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = const Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 297 | return value(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_base.h:1180:37: required from ‘TStream& seqan::operator<<(TStream&, const Gaps&) [with TStream = std::basic_ostream; TSource = String >; TSpec = AnchorGaps, Alloc<> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1180 | stream << convert(*it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ^~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar.h:127:19: required from ‘int reAlign4(TReadGaps&, TContigGaps&, TFragmentStore&, TId&, TBsScoreCTLeft&, TBsScoreCTRight&, TBsScoreGALeft&, TBsScoreGARight&, TOptions&) [with TReadGaps = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TContigGaps = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TFragmentStore = seqan::FragmentStore; TId = unsigned int; TBsScoreCTLeft = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TBsScoreCTRight = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TBsScoreGALeft = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TBsScoreGARight = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TOptions = AppOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 127 | std::cout << contigGaps << std::endl; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar.h:1289:17: required from ‘bool postProcessMain(TOptions&, const TModel&) [with TOptions = AppOptions; TModel = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1289 | reAlign4(readGaps, contigGaps, store, id, scoringSchemeCTLeft, scoringSchemeCTRight, scoringSchemeGALeft, scoringSchemeGARight, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar.cpp:294:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 294 | postProcessMain(options, BsNonSimple()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:211:12: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 211 | return TProxy(it); | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = const seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: initializing argument 1 of ‘seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]’ 99 | Proxy(TIterator const _it) | ~~~~~~~~~~~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h: In instantiation of ‘seqan::Proxy >::Proxy(const seqan::Proxy >&) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_base.h:297:17: required from ‘typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = const Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 297 | return value(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_base.h:1180:37: required from ‘TStream& seqan::operator<<(TStream&, const Gaps&) [with TStream = std::basic_ostream; TSource = String >; TSpec = AnchorGaps, Alloc<> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 1180 | stream << convert(*it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ^~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar.h:127:19: required from ‘int reAlign4(TReadGaps&, TContigGaps&, TFragmentStore&, TId&, TBsScoreCTLeft&, TBsScoreCTRight&, TBsScoreGALeft&, TBsScoreGARight&, TOptions&) [with TReadGaps = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TContigGaps = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TFragmentStore = seqan::FragmentStore; TId = unsigned int; TBsScoreCTLeft = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TBsScoreCTRight = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TBsScoreGALeft = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TBsScoreGARight = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TOptions = AppOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 127 | std::cout << contigGaps << std::endl; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar.h:1289:17: required from ‘bool postProcessMain(TOptions&, const TModel&) [with TOptions = AppOptions; TModel = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 1289 | reAlign4(readGaps, contigGaps, store, id, scoringSchemeCTLeft, scoringSchemeCTRight, scoringSchemeGALeft, scoringSchemeGARight, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar.cpp:294:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 294 | postProcessMain(options, BsNonSimple()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:106:15: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 106 | : data_iterator(_other.data_iterator) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = const seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h: In instantiation of ‘seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:211:12: required from ‘typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 211 | return TProxy(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_base.h:297:17: required from ‘typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 297 | return value(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar.h:157:26: required from ‘int reAlign4(TReadGaps&, TContigGaps&, TFragmentStore&, TId&, TBsScoreCTLeft&, TBsScoreCTRight&, TBsScoreGALeft&, TBsScoreGARight&, TOptions&) [with TReadGaps = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TContigGaps = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TFragmentStore = seqan::FragmentStore; TId = unsigned int; TBsScoreCTLeft = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TBsScoreCTRight = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TBsScoreGALeft = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TBsScoreGARight = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TOptions = AppOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 157 | else if (*itR == *itC || (*itR == 'T' && *itC == 'C')) ++matches; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar.h:1289:17: required from ‘bool postProcessMain(TOptions&, const TModel&) [with TOptions = AppOptions; TModel = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1289 | reAlign4(readGaps, contigGaps, store, id, scoringSchemeCTLeft, scoringSchemeCTRight, scoringSchemeGALeft, scoringSchemeGARight, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar.cpp:294:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 294 | postProcessMain(options, BsNonSimple()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:100:15: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 100 | : data_iterator(_it) | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h: In instantiation of ‘seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:211:12: required from ‘typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = const Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 211 | return TProxy(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_base.h:297:17: required from ‘typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = const Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 297 | return value(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_base.h:1180:37: required from ‘TStream& seqan::operator<<(TStream&, const Gaps&) [with TStream = std::basic_ostream; TSource = String >; TSpec = AnchorGaps, Alloc<> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1180 | stream << convert(*it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ^~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar.h:127:19: required from ‘int reAlign4(TReadGaps&, TContigGaps&, TFragmentStore&, TId&, TBsScoreCTLeft&, TBsScoreCTRight&, TBsScoreGALeft&, TBsScoreGARight&, TOptions&) [with TReadGaps = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TContigGaps = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TFragmentStore = seqan::FragmentStore; TId = unsigned int; TBsScoreCTLeft = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TBsScoreCTRight = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TBsScoreGALeft = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TBsScoreGARight = seqan::Score, seqan::Tag, seqan::Tag, seqan::Tag > >; TOptions = AppOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 127 | std::cout << contigGaps << std::endl; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar.h:1289:17: required from ‘bool postProcessMain(TOptions&, const TModel&) [with TOptions = AppOptions; TModel = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1289 | reAlign4(readGaps, contigGaps, store, id, scoringSchemeCTLeft, scoringSchemeCTRight, scoringSchemeGALeft, scoringSchemeGARight, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar.cpp:294:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 294 | postProcessMain(options, BsNonSimple()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:100:15: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 100 | : data_iterator(_it) | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = const seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:131:16: required from ‘seqan::String >::String(const seqan::String >&) [with TValue = seqan::SimpleType; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 131 | reserve(*this, std::min(capacity(source), computeGenerousCapacity(source, length(source))), Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar.h:1256:18: required from ‘bool postProcessMain(TOptions&, const TModel&) [with TOptions = AppOptions; TModel = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1256 | TReadSeq readSeq = store.readSeqStore[readId]; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar.cpp:294:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 294 | postProcessMain(options, BsNonSimple()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:131:16: required from ‘seqan::String >::String(const seqan::String >&) [with TValue = seqan::SimpleType; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 131 | reserve(*this, std::min(capacity(source), computeGenerousCapacity(source, length(source))), Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar.h:242:20: required from ‘int writeBsAlignment(TStream&, const seqan::BamIOContext&, TFragmentStore&, TContigGaps&, TId&, TScore&, seqan::BamAlignmentRecord&, TOptions&) [with TStream = std::basic_fstream; TNameStore = seqan::StringSet > >; TNameStoreCache = seqan::NameStoreCache > > >; TFragmentStore = seqan::FragmentStore; TContigGaps = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TId = unsigned int; TScore = double; TOptions = AppOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 242 | Dna5String tmpReadSeq = readSeq; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar.h:1194:41: required from ‘bool postProcessMain(TOptions&, const TModel&) [with TOptions = AppOptions; TModel = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1194 | writeBsAlignment(outStream, bamIOContext, store, setContigGaps[verifiedMates.alignedReadIdL], verifiedMates.alignedReadIdL, verifiedMates.mapqL, verifiedMates.recordL, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar.cpp:294:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 294 | postProcessMain(options, BsNonSimple()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1444:21: required from ‘void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1444 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1465:31: required from ‘void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1465 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:849:31: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 849 | arrayConstructMove(old_array, old_array + start, seq_array); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42: required from ‘void seqan::append(String&, const TSource&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1421 | AppendString_ >::append_(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_concat_direct.h:318:11: required from ‘void seqan::appendValue(StringSet > >&, const TString2&, Tag) [with TString = String >; TString2 = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 318 | append(me.concat, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:1657:13: required from ‘typename seqan::Size::TMatePairStore>::Type seqan::appendMatePair(FragmentStore&, const TRead&, const TRead&, const CharString&, const CharString&) [with TSpec = MyFragmentStoreConfig; TConfig = FragmentStoreConfig; TRead = String >; typename Size::TMatePairStore>::Type = long unsigned int; typename FragmentStore::TMatePairStore = String, Alloc<> >; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1657 | appendValue(me.readSeqStore, read1, Generous()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar_base.h:102:17: required from ‘bool loadReadsCroppedId(seqan::FragmentStore&, TFileName&, TFileName&) [with TFSSpec = seqan::MyFragmentStoreConfig; TFSConfig = seqan::FragmentStoreConfig; TFileName = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 102 | appendMatePair(store, seq[0], seq[1], _id[0], _id[1]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar.h:1117:27: required from ‘bool postProcessMain(TOptions&, const TModel&) [with TOptions = AppOptions; TModel = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1117 | loadReadsCroppedId(store, options.readFileName, options.readFileName2); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar.cpp:294:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 294 | postProcessMain(options, BsNonSimple()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1589:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1589 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveBackwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1641:30: required from ‘void seqan::arrayMoveBackward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1641 | _arrayMoveBackwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1213:26: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = SimpleType*; TSource1 = SimpleType*; TSource2 = SimpleType*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1213 | arrayMoveBackward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1660:14: required from ‘void seqan::_arrayClearSpacePointer(TValue*, size_t, size_t, size_t, const True&) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1660 | arrayMove(array_begin + keep_from, array_begin + array_length, array_begin + move_to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1681:28: required from ‘void seqan::arrayClearSpace(TValue*, size_t, size_t, size_t) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1681 | _arrayClearSpacePointer(array_begin, array_length, keep_from, move_to, typename IsSimple::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:856:28: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 856 | arrayClearSpace(seq_array + start, old_length - start, removed_size, size); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42: required from ‘void seqan::append(String&, const TSource&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1421 | AppendString_ >::append_(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_concat_direct.h:318:11: required from ‘void seqan::appendValue(StringSet > >&, const TString2&, Tag) [with TString = String >; TString2 = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 318 | append(me.concat, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:1657:13: required from ‘typename seqan::Size::TMatePairStore>::Type seqan::appendMatePair(FragmentStore&, const TRead&, const TRead&, const CharString&, const CharString&) [with TSpec = MyFragmentStoreConfig; TConfig = FragmentStoreConfig; TRead = String >; typename Size::TMatePairStore>::Type = long unsigned int; typename FragmentStore::TMatePairStore = String, Alloc<> >; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1657 | appendValue(me.readSeqStore, read1, Generous()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar_base.h:102:17: required from ‘bool loadReadsCroppedId(seqan::FragmentStore&, TFileName&, TFileName&) [with TFSSpec = seqan::MyFragmentStoreConfig; TFSConfig = seqan::FragmentStoreConfig; TFileName = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 102 | appendMatePair(store, seq[0], seq[1], _id[0], _id[1]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar.h:1117:27: required from ‘bool postProcessMain(TOptions&, const TModel&) [with TOptions = AppOptions; TModel = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1117 | loadReadsCroppedId(store, options.readFileName, options.readFileName2); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/bisar.cpp:294:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 294 | postProcessMain(options, BsNonSimple()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1621:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1621 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 33%] Linking CXX executable ../../../bin/bisar cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/bs_tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/bisar.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/bisar.dir/bisar.cpp.o -o ../../../bin/bisar -lrt -L/usr/lib64 -lz In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 33%] Built target bisar make -f extras/apps/bs_tools/CMakeFiles/casbar.dir/build.make extras/apps/bs_tools/CMakeFiles/casbar.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/bs_tools /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/bs_tools/CMakeFiles/casbar.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/bs_tools/CMakeFiles/casbar.dir/build.make extras/apps/bs_tools/CMakeFiles/casbar.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 35%] Building CXX object extras/apps/bs_tools/CMakeFiles/casbar.dir/casbar.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/bs_tools && /usr/bin/g++ -DSEQAN_DATE=\"\" -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/bs_tools/CMakeFiles/casbar.dir/casbar.cpp.o -MF CMakeFiles/casbar.dir/casbar.cpp.o.d -o CMakeFiles/casbar.dir/casbar.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:42: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:51, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:41: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:43: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:44: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa.h:44, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus.h:43, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_base.h:343:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 343 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa.h:48: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_guidetree.h: In function ‘void seqan::njTree(const String&, Graph >&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_guidetree.h:148:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 148 | for (unsigned i = 0; i < length(mat); ++i) | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_guidetree.h:152:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 152 | String<__int64> av; // Average branch length to a combined node | ^~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa.h:49: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h: In function ‘void seqan::read(TFile&, StringSet&, TNames&, FastaAlign)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:416:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 416 | if (atEnd(reader)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:420:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 420 | TString seq; | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h: In function ‘void seqan::read(TFile&, String&, String&, const TNames&, FastaAlign)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:534:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 534 | if (atEnd(reader)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:538:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 538 | String mat; | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h: In function ‘void seqan::read(TFile&, String&, String&, const TStringSet&, const TNames&, MummerLib)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:878:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 878 | if (atEnd(reader)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:880:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 880 | TName seq1; | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h: In function ‘void seqan::read(TFile&, Graph >&, TNames&, NewickFormat)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:985:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 985 | if (atEnd(reader)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:988:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 988 | TVertexDescriptor lastVertex = nilVertex; | ^~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus.h:48: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_base.h: In function ‘void seqan::getGappedConsensus(FragmentStore&, TGappedConsensus&, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_base.h:387:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 387 | for(int i = 0; i < ((int) itGaps->gapPos - (int) itGaps->seqPos) - diff; ++i) | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_base.h:389:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 389 | diff = (itGaps->gapPos - itGaps->seqPos); | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus.h:51: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_library.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_library.h:91:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 91 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_library.h:102:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 102 | public ::std::unary_function >, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/extras/include/../../extras/include/seqan/vcf_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:64: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h: In function ‘int seqan::writeRecord(TStream&, const VcfRecord&, const VcfIOContext&, const Vcf&)’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:190:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 190 | else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:192:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 192 | streamWriteChar(stream, '\t'); | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_realignment.h:6, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:72: /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_score.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_score.h:42:57: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct FunctorDna5OrdValueComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_realignment.h:17:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 17 | public ::std::binary_function < typename Value::Type, typename Value::Type, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_realignment.h:66:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 66 | struct LessPosLen : public ::std::binary_function < TPosLen, TPosLen, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_realignment.h:81:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 81 | public ::std::binary_function < typename Value::Type, typename Value::Type, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_realignment.h:129:35: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 129 | struct LessId : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_realignment.h:142:37: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 142 | struct LessGPos : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_realignment.h:165:40: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 165 | struct LessGPosEnd : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_realignment.h:184:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 184 | struct LessGPosEndOa : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_realignment.h:206:36: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 206 | struct HigherQ : public ::std::binary_function < TQual, TQual, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:81: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h: In instantiation of ‘seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1189:28: required from ‘typename seqan::Iterator >::Type seqan::iter(T&, TPos, Tag) [with T = Gaps >, AnchorGaps, Alloc<> > > >; TPos = long int; TTag = Rooted_; typename Iterator >::Type = Iter >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >]’ /usr/include/c++/14/bits/stl_function.h:131:12: note: 1189 | return begin(me, tag_) + pos; /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1169:16: required from ‘typename seqan::Iterator::Type>::Type seqan::iter(T&, TPos) [with T = Gaps >, AnchorGaps, Alloc<> > > >; TPos = long int; typename Iterator::Type>::Type = Iter >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /usr/include/c++/14/bits/stl_function.h:131:12: note: 1169 | return iter(me, pos, typename DefaultGetIteratorSpec::Type()); /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.h:1387:36: required from ‘void doSnpAndMethCalling(TFragmentStore&, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, bool, TVcfStream&, TBedStream&, TMethOptions&, TOptions&) [with TFragmentStore = seqan::FragmentStore; TVcfStream = seqan::VcfStream; TBedStream = seqan::BedStream; TMethOptions = MethCallingOptions; TOptions = SNPCallingOptions; typename TFragmentStore::TContigPos = long int]’ /usr/include/c++/14/bits/stl_function.h:131:12: note: 1387 | TContigGapIter refIt = iter(referenceGaps,candidateViewPos-refStart); /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:765:36: required from ‘bool detectSNPsForContig(TVcfStream&, TBedStream&, seqan::FragmentStore&, TContigId&, TReaders&, TContexts&, TRecords&, TContigIntervals&, TOptions&, TMethOptions&) [with TVcfStream = seqan::VcfStream; TBedStream = seqan::BedStream; TSpec = seqan::SnpStoreSpec_; TContigId = int; TReaders = seqan::String, seqan::SinglePass >*>; TContexts = seqan::String > > > >; TRecords = seqan::String; TContigIntervals = seqan::String > >; TOptions = SNPCallingOptions; TMethOptions = MethCallingOptions]’ /usr/include/c++/14/bits/stl_function.h:131:12: note: 765 | doSnpAndMethCalling(fragmentStoreTmp, startCoord, currentWindowBegin, currentWindowEnd, false, vcfStream, bedStream, methOptions, options); //bs /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:919:32: required from ‘int detectSNPs(SNPCallingOptions&, TMethOptions&) [with TMethOptions = MethCallingOptions]’ /usr/include/c++/14/bits/stl_function.h:131:12: note: 919 | detectSNPsForContig(tempVcfStream, tempBedStream, fragmentStore1, currContigId, recordReaders, contexts, records, contigIntervals, options, methOptions); /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:1286:28: required from here /usr/include/c++/14/bits/stl_function.h:131:12: note: 1286 | int result = detectSNPs(options, methOptions); /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:742:58: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 742 | Iter > > result = lhs; | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:744:12: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 744 | return result; | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h: In instantiation of ‘typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = const Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_base.h:297:17: required from ‘typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = const Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 297 | return value(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_base.h:1180:37: required from ‘TStream& seqan::operator<<(TStream&, const Gaps&) [with TStream = std::basic_ostream; TSource = String >; TSpec = AnchorGaps, Alloc<> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1180 | stream << convert(*it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ^~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.h:1527:47: required from ‘void doSnpAndMethCalling(TFragmentStore&, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, bool, TVcfStream&, TBedStream&, TMethOptions&, TOptions&) [with TFragmentStore = seqan::FragmentStore; TVcfStream = seqan::VcfStream; TBedStream = seqan::BedStream; TMethOptions = MethCallingOptions; TOptions = SNPCallingOptions; typename TFragmentStore::TContigPos = long int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1527 | std::cout << " contigGaps: " << contigGaps << std::endl; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:765:36: required from ‘bool detectSNPsForContig(TVcfStream&, TBedStream&, seqan::FragmentStore&, TContigId&, TReaders&, TContexts&, TRecords&, TContigIntervals&, TOptions&, TMethOptions&) [with TVcfStream = seqan::VcfStream; TBedStream = seqan::BedStream; TSpec = seqan::SnpStoreSpec_; TContigId = int; TReaders = seqan::String, seqan::SinglePass >*>; TContexts = seqan::String > > > >; TRecords = seqan::String; TContigIntervals = seqan::String > >; TOptions = SNPCallingOptions; TMethOptions = MethCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 765 | doSnpAndMethCalling(fragmentStoreTmp, startCoord, currentWindowBegin, currentWindowEnd, false, vcfStream, bedStream, methOptions, options); //bs /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:919:32: required from ‘int detectSNPs(SNPCallingOptions&, TMethOptions&) [with TMethOptions = MethCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 919 | detectSNPsForContig(tempVcfStream, tempBedStream, fragmentStore1, currContigId, recordReaders, contexts, records, contigIntervals, options, methOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:1286:28: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1286 | int result = detectSNPs(options, methOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:211:12: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 211 | return TProxy(it); | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = const seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_iterator.h:75, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:86: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: initializing argument 1 of ‘seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]’ 99 | Proxy(TIterator const _it) | ~~~~~~~~~~~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h: In instantiation of ‘seqan::Proxy >::Proxy(const seqan::Proxy >&) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_base.h:297:17: required from ‘typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = const Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 297 | return value(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_base.h:1180:37: required from ‘TStream& seqan::operator<<(TStream&, const Gaps&) [with TStream = std::basic_ostream; TSource = String >; TSpec = AnchorGaps, Alloc<> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 1180 | stream << convert(*it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ^~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.h:1527:47: required from ‘void doSnpAndMethCalling(TFragmentStore&, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, bool, TVcfStream&, TBedStream&, TMethOptions&, TOptions&) [with TFragmentStore = seqan::FragmentStore; TVcfStream = seqan::VcfStream; TBedStream = seqan::BedStream; TMethOptions = MethCallingOptions; TOptions = SNPCallingOptions; typename TFragmentStore::TContigPos = long int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 1527 | std::cout << " contigGaps: " << contigGaps << std::endl; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:765:36: required from ‘bool detectSNPsForContig(TVcfStream&, TBedStream&, seqan::FragmentStore&, TContigId&, TReaders&, TContexts&, TRecords&, TContigIntervals&, TOptions&, TMethOptions&) [with TVcfStream = seqan::VcfStream; TBedStream = seqan::BedStream; TSpec = seqan::SnpStoreSpec_; TContigId = int; TReaders = seqan::String, seqan::SinglePass >*>; TContexts = seqan::String > > > >; TRecords = seqan::String; TContigIntervals = seqan::String > >; TOptions = SNPCallingOptions; TMethOptions = MethCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 765 | doSnpAndMethCalling(fragmentStoreTmp, startCoord, currentWindowBegin, currentWindowEnd, false, vcfStream, bedStream, methOptions, options); //bs /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:919:32: required from ‘int detectSNPs(SNPCallingOptions&, TMethOptions&) [with TMethOptions = MethCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 919 | detectSNPsForContig(tempVcfStream, tempBedStream, fragmentStore1, currContigId, recordReaders, contexts, records, contigIntervals, options, methOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:1286:28: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 1286 | int result = detectSNPs(options, methOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:106:15: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 106 | : data_iterator(_other.data_iterator) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = const seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h: In instantiation of ‘seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:211:12: required from ‘typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = const Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 211 | return TProxy(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_base.h:297:17: required from ‘typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = const Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 297 | return value(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_base.h:1180:37: required from ‘TStream& seqan::operator<<(TStream&, const Gaps&) [with TStream = std::basic_ostream; TSource = String >; TSpec = AnchorGaps, Alloc<> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1180 | stream << convert(*it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ^~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.h:1527:47: required from ‘void doSnpAndMethCalling(TFragmentStore&, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, bool, TVcfStream&, TBedStream&, TMethOptions&, TOptions&) [with TFragmentStore = seqan::FragmentStore; TVcfStream = seqan::VcfStream; TBedStream = seqan::BedStream; TMethOptions = MethCallingOptions; TOptions = SNPCallingOptions; typename TFragmentStore::TContigPos = long int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1527 | std::cout << " contigGaps: " << contigGaps << std::endl; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:765:36: required from ‘bool detectSNPsForContig(TVcfStream&, TBedStream&, seqan::FragmentStore&, TContigId&, TReaders&, TContexts&, TRecords&, TContigIntervals&, TOptions&, TMethOptions&) [with TVcfStream = seqan::VcfStream; TBedStream = seqan::BedStream; TSpec = seqan::SnpStoreSpec_; TContigId = int; TReaders = seqan::String, seqan::SinglePass >*>; TContexts = seqan::String > > > >; TRecords = seqan::String; TContigIntervals = seqan::String > >; TOptions = SNPCallingOptions; TMethOptions = MethCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 765 | doSnpAndMethCalling(fragmentStoreTmp, startCoord, currentWindowBegin, currentWindowEnd, false, vcfStream, bedStream, methOptions, options); //bs /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:919:32: required from ‘int detectSNPs(SNPCallingOptions&, TMethOptions&) [with TMethOptions = MethCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 919 | detectSNPsForContig(tempVcfStream, tempBedStream, fragmentStore1, currContigId, recordReaders, contexts, records, contigIntervals, options, methOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:1286:28: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1286 | int result = detectSNPs(options, methOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:100:15: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 100 | : data_iterator(_it) | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = const seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h: In instantiation of ‘typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = const Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_base.h:297:17: required from ‘typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = const Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 297 | return value(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_base.h:1157:36: required from ‘void seqan::write(TFile&, const Gaps&, const TIDString&, Raw) [with TFile = std::basic_ostream; TSource = String >; TIDString = char [1]; TSpec = AnchorGaps, Alloc<> > >; Raw = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1157 | streamPut(target, convert(*begin_)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2110:7: required from ‘void seqan::_printRead(TStream&, const Tag&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TFormatTag = TagRaw_; TContigGaps = Gaps >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 2110 | write(stream, readGaps, "", format); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2278:14: required from ‘void seqan::printAlignment(TStream&, const Tag&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TFormatTag = TagRaw_; TSpec = SnpStoreSpec_; TConfig = FragmentStoreConfig; TContigId = int; TPos = long int; TNum = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 2278 | _printRead(stream, format, layout, contigGaps, readGaps, align, line); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.h:1195:31: required from ‘void doCheckRealignCall(TFragmentStore&, TContigPos, TContigPos, TContigPos, TSetContigAnchorGaps&, TVcfStream&, TBedStream&, TMethOptions&, TOptions&) [with TFragmentStore = seqan::FragmentStore; TContigPos = long int; TSetContigAnchorGaps = seqan::String, seqan::Alloc<> >, seqan::Alloc<> >; TVcfStream = seqan::VcfStream; TBedStream = seqan::BedStream; TMethOptions = MethCallingOptions; TOptions = SNPCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1195 | printAlignment(std::cout, Raw(), layout, fragStoreGroup, 0, (TContigPos)(maxPos-100), (TContigPos)maxPos, 0, 150); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:752:35: required from ‘bool detectSNPsForContig(TVcfStream&, TBedStream&, seqan::FragmentStore&, TContigId&, TReaders&, TContexts&, TRecords&, TContigIntervals&, TOptions&, TMethOptions&) [with TVcfStream = seqan::VcfStream; TBedStream = seqan::BedStream; TSpec = seqan::SnpStoreSpec_; TContigId = int; TReaders = seqan::String, seqan::SinglePass >*>; TContexts = seqan::String > > > >; TRecords = seqan::String; TContigIntervals = seqan::String > >; TOptions = SNPCallingOptions; TMethOptions = MethCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 752 | doCheckRealignCall(fragmentStoreTmp, startCoord, currentWindowBegin, currentWindowEnd, setContigAnchorGaps, vcfStream, bedStream, methOptions, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:919:32: required from ‘int detectSNPs(SNPCallingOptions&, TMethOptions&) [with TMethOptions = MethCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 919 | detectSNPsForContig(tempVcfStream, tempBedStream, fragmentStore1, currContigId, recordReaders, contexts, records, contigIntervals, options, methOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:1286:28: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1286 | int result = detectSNPs(options, methOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:211:12: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 211 | return TProxy(it); | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = const seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: initializing argument 1 of ‘seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]’ 99 | Proxy(TIterator const _it) | ~~~~~~~~~~~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h: In instantiation of ‘seqan::Proxy >::Proxy(const seqan::Proxy >&) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_base.h:297:17: required from ‘typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = const Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 297 | return value(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_base.h:1157:36: required from ‘void seqan::write(TFile&, const Gaps&, const TIDString&, Raw) [with TFile = std::basic_ostream; TSource = String >; TIDString = char [1]; TSpec = AnchorGaps, Alloc<> > >; Raw = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 1157 | streamPut(target, convert(*begin_)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2110:7: required from ‘void seqan::_printRead(TStream&, const Tag&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TFormatTag = TagRaw_; TContigGaps = Gaps >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 2110 | write(stream, readGaps, "", format); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2278:14: required from ‘void seqan::printAlignment(TStream&, const Tag&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TFormatTag = TagRaw_; TSpec = SnpStoreSpec_; TConfig = FragmentStoreConfig; TContigId = int; TPos = long int; TNum = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 2278 | _printRead(stream, format, layout, contigGaps, readGaps, align, line); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.h:1195:31: required from ‘void doCheckRealignCall(TFragmentStore&, TContigPos, TContigPos, TContigPos, TSetContigAnchorGaps&, TVcfStream&, TBedStream&, TMethOptions&, TOptions&) [with TFragmentStore = seqan::FragmentStore; TContigPos = long int; TSetContigAnchorGaps = seqan::String, seqan::Alloc<> >, seqan::Alloc<> >; TVcfStream = seqan::VcfStream; TBedStream = seqan::BedStream; TMethOptions = MethCallingOptions; TOptions = SNPCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 1195 | printAlignment(std::cout, Raw(), layout, fragStoreGroup, 0, (TContigPos)(maxPos-100), (TContigPos)maxPos, 0, 150); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:752:35: required from ‘bool detectSNPsForContig(TVcfStream&, TBedStream&, seqan::FragmentStore&, TContigId&, TReaders&, TContexts&, TRecords&, TContigIntervals&, TOptions&, TMethOptions&) [with TVcfStream = seqan::VcfStream; TBedStream = seqan::BedStream; TSpec = seqan::SnpStoreSpec_; TContigId = int; TReaders = seqan::String, seqan::SinglePass >*>; TContexts = seqan::String > > > >; TRecords = seqan::String; TContigIntervals = seqan::String > >; TOptions = SNPCallingOptions; TMethOptions = MethCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 752 | doCheckRealignCall(fragmentStoreTmp, startCoord, currentWindowBegin, currentWindowEnd, setContigAnchorGaps, vcfStream, bedStream, methOptions, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:919:32: required from ‘int detectSNPs(SNPCallingOptions&, TMethOptions&) [with TMethOptions = MethCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 919 | detectSNPsForContig(tempVcfStream, tempBedStream, fragmentStore1, currContigId, recordReaders, contexts, records, contigIntervals, options, methOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:1286:28: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 1286 | int result = detectSNPs(options, methOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:106:15: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 106 | : data_iterator(_other.data_iterator) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = const seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h: In instantiation of ‘seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_svg.h:343:54: required from ‘void seqan::_printRead(SVGFile&, const Tag&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TFormatTag = TagRaw_; TContigGaps = Gaps >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 343 | TContigIterator cit = begin(contigGaps, Standard()) + (_min(alignedRead.beginPos, alignedRead.endPos) + beginPosition(readGaps)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2278:14: required from ‘void seqan::printAlignment(TStream&, const Tag&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = SVGFile; TFormatTag = TagRaw_; TSpec = SnpStoreSpec_; TConfig = FragmentStoreConfig; TContigId = int; TPos = long int; TNum = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 2278 | _printRead(stream, format, layout, contigGaps, readGaps, align, line); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_consensus_realign.h:633:27: required from ‘void reAlign(seqan::FragmentStore&, TId, TBandwidth, bool, TOptions&, const TModel&) [with TSpec = seqan::SnpStoreSpec_; TConfig = seqan::FragmentStoreConfig; TId = int; TBandwidth = int; TOptions = MethCallingOptions; TModel = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 633 | printAlignment(svg, Raw(), layout, fragStore, 0, (TContigPos)0, (TContigPos)200, 0, 300); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_realignment.h:245:12: required from ‘void doRealigning(TFragmentStore&, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, TMethOptions&, TOptions&) [with TFragmentStore = seqan::FragmentStore; TMethOptions = MethCallingOptions; TOptions = SNPCallingOptions; typename TFragmentStore::TContigPos = long int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 245 | reAlign(fragmentStore, 0, bandWidth, true, methOptions, BsSimple()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.h:1231:29: required from ‘void doCheckRealignCall(TFragmentStore&, TContigPos, TContigPos, TContigPos, TSetContigAnchorGaps&, TVcfStream&, TBedStream&, TMethOptions&, TOptions&) [with TFragmentStore = seqan::FragmentStore; TContigPos = long int; TSetContigAnchorGaps = seqan::String, seqan::Alloc<> >, seqan::Alloc<> >; TVcfStream = seqan::VcfStream; TBedStream = seqan::BedStream; TMethOptions = MethCallingOptions; TOptions = SNPCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1231 | doRealigning(fragStoreGroup, groupWindowBegin, groupWindowBegin, methOptions, options); // TODO: do only for reads spanning potential indel position /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:752:35: required from ‘bool detectSNPsForContig(TVcfStream&, TBedStream&, seqan::FragmentStore&, TContigId&, TReaders&, TContexts&, TRecords&, TContigIntervals&, TOptions&, TMethOptions&) [with TVcfStream = seqan::VcfStream; TBedStream = seqan::BedStream; TSpec = seqan::SnpStoreSpec_; TContigId = int; TReaders = seqan::String, seqan::SinglePass >*>; TContexts = seqan::String > > > >; TRecords = seqan::String; TContigIntervals = seqan::String > >; TOptions = SNPCallingOptions; TMethOptions = MethCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 752 | doCheckRealignCall(fragmentStoreTmp, startCoord, currentWindowBegin, currentWindowEnd, setContigAnchorGaps, vcfStream, bedStream, methOptions, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:919:32: required from ‘int detectSNPs(SNPCallingOptions&, TMethOptions&) [with TMethOptions = MethCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 919 | detectSNPsForContig(tempVcfStream, tempBedStream, fragmentStore1, currContigId, recordReaders, contexts, records, contigIntervals, options, methOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:1286:28: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1286 | int result = detectSNPs(options, methOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:742:58: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 742 | Iter > > result = lhs; | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:744:12: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 744 | return result; | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h: In instantiation of ‘seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:211:12: required from ‘typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = const Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 211 | return TProxy(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_base.h:297:17: required from ‘typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = const Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 297 | return value(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_base.h:1157:36: required from ‘void seqan::write(TFile&, const Gaps&, const TIDString&, Raw) [with TFile = std::basic_ostream; TSource = String >; TIDString = char [1]; TSpec = AnchorGaps, Alloc<> > >; Raw = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1157 | streamPut(target, convert(*begin_)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2110:7: required from ‘void seqan::_printRead(TStream&, const Tag&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TFormatTag = TagRaw_; TContigGaps = Gaps >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 2110 | write(stream, readGaps, "", format); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2278:14: required from ‘void seqan::printAlignment(TStream&, const Tag&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TFormatTag = TagRaw_; TSpec = SnpStoreSpec_; TConfig = FragmentStoreConfig; TContigId = int; TPos = long int; TNum = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 2278 | _printRead(stream, format, layout, contigGaps, readGaps, align, line); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.h:1195:31: required from ‘void doCheckRealignCall(TFragmentStore&, TContigPos, TContigPos, TContigPos, TSetContigAnchorGaps&, TVcfStream&, TBedStream&, TMethOptions&, TOptions&) [with TFragmentStore = seqan::FragmentStore; TContigPos = long int; TSetContigAnchorGaps = seqan::String, seqan::Alloc<> >, seqan::Alloc<> >; TVcfStream = seqan::VcfStream; TBedStream = seqan::BedStream; TMethOptions = MethCallingOptions; TOptions = SNPCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1195 | printAlignment(std::cout, Raw(), layout, fragStoreGroup, 0, (TContigPos)(maxPos-100), (TContigPos)maxPos, 0, 150); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:752:35: required from ‘bool detectSNPsForContig(TVcfStream&, TBedStream&, seqan::FragmentStore&, TContigId&, TReaders&, TContexts&, TRecords&, TContigIntervals&, TOptions&, TMethOptions&) [with TVcfStream = seqan::VcfStream; TBedStream = seqan::BedStream; TSpec = seqan::SnpStoreSpec_; TContigId = int; TReaders = seqan::String, seqan::SinglePass >*>; TContexts = seqan::String > > > >; TRecords = seqan::String; TContigIntervals = seqan::String > >; TOptions = SNPCallingOptions; TMethOptions = MethCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 752 | doCheckRealignCall(fragmentStoreTmp, startCoord, currentWindowBegin, currentWindowEnd, setContigAnchorGaps, vcfStream, bedStream, methOptions, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:919:32: required from ‘int detectSNPs(SNPCallingOptions&, TMethOptions&) [with TMethOptions = MethCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 919 | detectSNPsForContig(tempVcfStream, tempBedStream, fragmentStore1, currContigId, recordReaders, contexts, records, contigIntervals, options, methOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:1286:28: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1286 | int result = detectSNPs(options, methOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:100:15: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 100 | : data_iterator(_it) | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = const seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h: In instantiation of ‘typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_base.h:297:17: required from ‘typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 297 | return value(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_svg.h:352:96: required from ‘void seqan::_printRead(SVGFile&, const Tag&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TFormatTag = TagRaw_; TContigGaps = Gaps >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 352 | if (lastWasGap != inGap || inGap != static_cast(isGap(cit)) || (!inGap && convert(*cit) != convert(*it))) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2278:14: required from ‘void seqan::printAlignment(TStream&, const Tag&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = SVGFile; TFormatTag = TagRaw_; TSpec = SnpStoreSpec_; TConfig = FragmentStoreConfig; TContigId = int; TPos = long int; TNum = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 2278 | _printRead(stream, format, layout, contigGaps, readGaps, align, line); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_consensus_realign.h:633:27: required from ‘void reAlign(seqan::FragmentStore&, TId, TBandwidth, bool, TOptions&, const TModel&) [with TSpec = seqan::SnpStoreSpec_; TConfig = seqan::FragmentStoreConfig; TId = int; TBandwidth = int; TOptions = MethCallingOptions; TModel = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 633 | printAlignment(svg, Raw(), layout, fragStore, 0, (TContigPos)0, (TContigPos)200, 0, 300); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_realignment.h:245:12: required from ‘void doRealigning(TFragmentStore&, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, TMethOptions&, TOptions&) [with TFragmentStore = seqan::FragmentStore; TMethOptions = MethCallingOptions; TOptions = SNPCallingOptions; typename TFragmentStore::TContigPos = long int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 245 | reAlign(fragmentStore, 0, bandWidth, true, methOptions, BsSimple()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.h:1231:29: required from ‘void doCheckRealignCall(TFragmentStore&, TContigPos, TContigPos, TContigPos, TSetContigAnchorGaps&, TVcfStream&, TBedStream&, TMethOptions&, TOptions&) [with TFragmentStore = seqan::FragmentStore; TContigPos = long int; TSetContigAnchorGaps = seqan::String, seqan::Alloc<> >, seqan::Alloc<> >; TVcfStream = seqan::VcfStream; TBedStream = seqan::BedStream; TMethOptions = MethCallingOptions; TOptions = SNPCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1231 | doRealigning(fragStoreGroup, groupWindowBegin, groupWindowBegin, methOptions, options); // TODO: do only for reads spanning potential indel position /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:752:35: required from ‘bool detectSNPsForContig(TVcfStream&, TBedStream&, seqan::FragmentStore&, TContigId&, TReaders&, TContexts&, TRecords&, TContigIntervals&, TOptions&, TMethOptions&) [with TVcfStream = seqan::VcfStream; TBedStream = seqan::BedStream; TSpec = seqan::SnpStoreSpec_; TContigId = int; TReaders = seqan::String, seqan::SinglePass >*>; TContexts = seqan::String > > > >; TRecords = seqan::String; TContigIntervals = seqan::String > >; TOptions = SNPCallingOptions; TMethOptions = MethCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 752 | doCheckRealignCall(fragmentStoreTmp, startCoord, currentWindowBegin, currentWindowEnd, setContigAnchorGaps, vcfStream, bedStream, methOptions, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:919:32: required from ‘int detectSNPs(SNPCallingOptions&, TMethOptions&) [with TMethOptions = MethCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 919 | detectSNPsForContig(tempVcfStream, tempBedStream, fragmentStore1, currContigId, recordReaders, contexts, records, contigIntervals, options, methOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:1286:28: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1286 | int result = detectSNPs(options, methOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:211:12: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 211 | return TProxy(it); | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: initializing argument 1 of ‘seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]’ 99 | Proxy(TIterator const _it) | ~~~~~~~~~~~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h: In instantiation of ‘seqan::Proxy >::Proxy(const seqan::Proxy >&) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_base.h:297:17: required from ‘typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 297 | return value(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_svg.h:352:96: required from ‘void seqan::_printRead(SVGFile&, const Tag&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TFormatTag = TagRaw_; TContigGaps = Gaps >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 352 | if (lastWasGap != inGap || inGap != static_cast(isGap(cit)) || (!inGap && convert(*cit) != convert(*it))) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2278:14: required from ‘void seqan::printAlignment(TStream&, const Tag&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = SVGFile; TFormatTag = TagRaw_; TSpec = SnpStoreSpec_; TConfig = FragmentStoreConfig; TContigId = int; TPos = long int; TNum = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 2278 | _printRead(stream, format, layout, contigGaps, readGaps, align, line); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_consensus_realign.h:633:27: required from ‘void reAlign(seqan::FragmentStore&, TId, TBandwidth, bool, TOptions&, const TModel&) [with TSpec = seqan::SnpStoreSpec_; TConfig = seqan::FragmentStoreConfig; TId = int; TBandwidth = int; TOptions = MethCallingOptions; TModel = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 633 | printAlignment(svg, Raw(), layout, fragStore, 0, (TContigPos)0, (TContigPos)200, 0, 300); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_realignment.h:245:12: required from ‘void doRealigning(TFragmentStore&, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, TMethOptions&, TOptions&) [with TFragmentStore = seqan::FragmentStore; TMethOptions = MethCallingOptions; TOptions = SNPCallingOptions; typename TFragmentStore::TContigPos = long int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 245 | reAlign(fragmentStore, 0, bandWidth, true, methOptions, BsSimple()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.h:1231:29: required from ‘void doCheckRealignCall(TFragmentStore&, TContigPos, TContigPos, TContigPos, TSetContigAnchorGaps&, TVcfStream&, TBedStream&, TMethOptions&, TOptions&) [with TFragmentStore = seqan::FragmentStore; TContigPos = long int; TSetContigAnchorGaps = seqan::String, seqan::Alloc<> >, seqan::Alloc<> >; TVcfStream = seqan::VcfStream; TBedStream = seqan::BedStream; TMethOptions = MethCallingOptions; TOptions = SNPCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 1231 | doRealigning(fragStoreGroup, groupWindowBegin, groupWindowBegin, methOptions, options); // TODO: do only for reads spanning potential indel position /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:752:35: required from ‘bool detectSNPsForContig(TVcfStream&, TBedStream&, seqan::FragmentStore&, TContigId&, TReaders&, TContexts&, TRecords&, TContigIntervals&, TOptions&, TMethOptions&) [with TVcfStream = seqan::VcfStream; TBedStream = seqan::BedStream; TSpec = seqan::SnpStoreSpec_; TContigId = int; TReaders = seqan::String, seqan::SinglePass >*>; TContexts = seqan::String > > > >; TRecords = seqan::String; TContigIntervals = seqan::String > >; TOptions = SNPCallingOptions; TMethOptions = MethCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 752 | doCheckRealignCall(fragmentStoreTmp, startCoord, currentWindowBegin, currentWindowEnd, setContigAnchorGaps, vcfStream, bedStream, methOptions, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:919:32: required from ‘int detectSNPs(SNPCallingOptions&, TMethOptions&) [with TMethOptions = MethCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 919 | detectSNPsForContig(tempVcfStream, tempBedStream, fragmentStore1, currContigId, recordReaders, contexts, records, contigIntervals, options, methOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:1286:28: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 1286 | int result = detectSNPs(options, methOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:106:15: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 106 | : data_iterator(_other.data_iterator) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h: In instantiation of ‘typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_base.h:297:17: required from ‘typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 297 | return value(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_svg.h:352:119: required from ‘void seqan::_printRead(SVGFile&, const Tag&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TFormatTag = TagRaw_; TContigGaps = Gaps >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 352 | if (lastWasGap != inGap || inGap != static_cast(isGap(cit)) || (!inGap && convert(*cit) != convert(*it))) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2278:14: required from ‘void seqan::printAlignment(TStream&, const Tag&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = SVGFile; TFormatTag = TagRaw_; TSpec = SnpStoreSpec_; TConfig = FragmentStoreConfig; TContigId = int; TPos = long int; TNum = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 2278 | _printRead(stream, format, layout, contigGaps, readGaps, align, line); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_consensus_realign.h:633:27: required from ‘void reAlign(seqan::FragmentStore&, TId, TBandwidth, bool, TOptions&, const TModel&) [with TSpec = seqan::SnpStoreSpec_; TConfig = seqan::FragmentStoreConfig; TId = int; TBandwidth = int; TOptions = MethCallingOptions; TModel = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 633 | printAlignment(svg, Raw(), layout, fragStore, 0, (TContigPos)0, (TContigPos)200, 0, 300); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_realignment.h:245:12: required from ‘void doRealigning(TFragmentStore&, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, TMethOptions&, TOptions&) [with TFragmentStore = seqan::FragmentStore; TMethOptions = MethCallingOptions; TOptions = SNPCallingOptions; typename TFragmentStore::TContigPos = long int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 245 | reAlign(fragmentStore, 0, bandWidth, true, methOptions, BsSimple()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.h:1231:29: required from ‘void doCheckRealignCall(TFragmentStore&, TContigPos, TContigPos, TContigPos, TSetContigAnchorGaps&, TVcfStream&, TBedStream&, TMethOptions&, TOptions&) [with TFragmentStore = seqan::FragmentStore; TContigPos = long int; TSetContigAnchorGaps = seqan::String, seqan::Alloc<> >, seqan::Alloc<> >; TVcfStream = seqan::VcfStream; TBedStream = seqan::BedStream; TMethOptions = MethCallingOptions; TOptions = SNPCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1231 | doRealigning(fragStoreGroup, groupWindowBegin, groupWindowBegin, methOptions, options); // TODO: do only for reads spanning potential indel position /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:752:35: required from ‘bool detectSNPsForContig(TVcfStream&, TBedStream&, seqan::FragmentStore&, TContigId&, TReaders&, TContexts&, TRecords&, TContigIntervals&, TOptions&, TMethOptions&) [with TVcfStream = seqan::VcfStream; TBedStream = seqan::BedStream; TSpec = seqan::SnpStoreSpec_; TContigId = int; TReaders = seqan::String, seqan::SinglePass >*>; TContexts = seqan::String > > > >; TRecords = seqan::String; TContigIntervals = seqan::String > >; TOptions = SNPCallingOptions; TMethOptions = MethCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 752 | doCheckRealignCall(fragmentStoreTmp, startCoord, currentWindowBegin, currentWindowEnd, setContigAnchorGaps, vcfStream, bedStream, methOptions, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:919:32: required from ‘int detectSNPs(SNPCallingOptions&, TMethOptions&) [with TMethOptions = MethCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 919 | detectSNPsForContig(tempVcfStream, tempBedStream, fragmentStore1, currContigId, recordReaders, contexts, records, contigIntervals, options, methOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:1286:28: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1286 | int result = detectSNPs(options, methOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:211:12: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 211 | return TProxy(it); | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: initializing argument 1 of ‘seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]’ 99 | Proxy(TIterator const _it) | ~~~~~~~~~~~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h: In instantiation of ‘seqan::Proxy >::Proxy(const seqan::Proxy >&) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_base.h:297:17: required from ‘typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 297 | return value(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_svg.h:352:119: required from ‘void seqan::_printRead(SVGFile&, const Tag&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TFormatTag = TagRaw_; TContigGaps = Gaps >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 352 | if (lastWasGap != inGap || inGap != static_cast(isGap(cit)) || (!inGap && convert(*cit) != convert(*it))) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2278:14: required from ‘void seqan::printAlignment(TStream&, const Tag&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = SVGFile; TFormatTag = TagRaw_; TSpec = SnpStoreSpec_; TConfig = FragmentStoreConfig; TContigId = int; TPos = long int; TNum = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 2278 | _printRead(stream, format, layout, contigGaps, readGaps, align, line); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_consensus_realign.h:633:27: required from ‘void reAlign(seqan::FragmentStore&, TId, TBandwidth, bool, TOptions&, const TModel&) [with TSpec = seqan::SnpStoreSpec_; TConfig = seqan::FragmentStoreConfig; TId = int; TBandwidth = int; TOptions = MethCallingOptions; TModel = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 633 | printAlignment(svg, Raw(), layout, fragStore, 0, (TContigPos)0, (TContigPos)200, 0, 300); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_realignment.h:245:12: required from ‘void doRealigning(TFragmentStore&, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, TMethOptions&, TOptions&) [with TFragmentStore = seqan::FragmentStore; TMethOptions = MethCallingOptions; TOptions = SNPCallingOptions; typename TFragmentStore::TContigPos = long int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 245 | reAlign(fragmentStore, 0, bandWidth, true, methOptions, BsSimple()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.h:1231:29: required from ‘void doCheckRealignCall(TFragmentStore&, TContigPos, TContigPos, TContigPos, TSetContigAnchorGaps&, TVcfStream&, TBedStream&, TMethOptions&, TOptions&) [with TFragmentStore = seqan::FragmentStore; TContigPos = long int; TSetContigAnchorGaps = seqan::String, seqan::Alloc<> >, seqan::Alloc<> >; TVcfStream = seqan::VcfStream; TBedStream = seqan::BedStream; TMethOptions = MethCallingOptions; TOptions = SNPCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 1231 | doRealigning(fragStoreGroup, groupWindowBegin, groupWindowBegin, methOptions, options); // TODO: do only for reads spanning potential indel position /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:752:35: required from ‘bool detectSNPsForContig(TVcfStream&, TBedStream&, seqan::FragmentStore&, TContigId&, TReaders&, TContexts&, TRecords&, TContigIntervals&, TOptions&, TMethOptions&) [with TVcfStream = seqan::VcfStream; TBedStream = seqan::BedStream; TSpec = seqan::SnpStoreSpec_; TContigId = int; TReaders = seqan::String, seqan::SinglePass >*>; TContexts = seqan::String > > > >; TRecords = seqan::String; TContigIntervals = seqan::String > >; TOptions = SNPCallingOptions; TMethOptions = MethCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 752 | doCheckRealignCall(fragmentStoreTmp, startCoord, currentWindowBegin, currentWindowEnd, setContigAnchorGaps, vcfStream, bedStream, methOptions, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:919:32: required from ‘int detectSNPs(SNPCallingOptions&, TMethOptions&) [with TMethOptions = MethCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 919 | detectSNPsForContig(tempVcfStream, tempBedStream, fragmentStore1, currContigId, recordReaders, contexts, records, contigIntervals, options, methOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:1286:28: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: 1286 | int result = detectSNPs(options, methOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:99:27: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:106:15: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 106 | : data_iterator(_other.data_iterator) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:131:16: required from ‘seqan::String >::String(const seqan::String >&) [with TValue = seqan::SimpleType; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 131 | reserve(*this, std::min(capacity(source), computeGenerousCapacity(source, length(source))), Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.h:680:15: required from ‘int readMatchesFromSamBam(TSetContigAnchorGaps&, TReader&, seqan::BamIOContext&, seqan::BamAlignmentRecord&, TFragmentStore&, TFragmentStore&, TContigId, TContigPos, TContigPos, TOptions&) [with TSetContigAnchorGaps = seqan::String, seqan::Alloc<> >, seqan::Alloc<> >; TReader = seqan::RecordReader, seqan::SinglePass >; TNameStore = seqan::StringSet > >; TFragmentStore = seqan::FragmentStore; TContigId = int; TContigPos = long int; TOptions = SNPCallingOptions; typename seqan::Value::Type = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 680 | TRead curr_read = record.seq; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:697:47: required from ‘bool detectSNPsForContig(TVcfStream&, TBedStream&, seqan::FragmentStore&, TContigId&, TReaders&, TContexts&, TRecords&, TContigIntervals&, TOptions&, TMethOptions&) [with TVcfStream = seqan::VcfStream; TBedStream = seqan::BedStream; TSpec = seqan::SnpStoreSpec_; TContigId = int; TReaders = seqan::String, seqan::SinglePass >*>; TContexts = seqan::String > > > >; TRecords = seqan::String; TContigIntervals = seqan::String > >; TOptions = SNPCallingOptions; TMethOptions = MethCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 697 | int result = readMatchesFromSamBam(setContigAnchorGaps, *recordReaders[j], contexts[j], records[j], fragmentStoreTmp, fragmentStore1, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 698 | currContigId, currentWindowBegin, currentWindowEnd, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:919:32: required from ‘int detectSNPs(SNPCallingOptions&, TMethOptions&) [with TMethOptions = MethCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 919 | detectSNPsForContig(tempVcfStream, tempBedStream, fragmentStore1, currContigId, recordReaders, contexts, records, contigIntervals, options, methOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:1286:28: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1286 | int result = detectSNPs(options, methOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h: In instantiation of ‘seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:211:12: required from ‘typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 211 | return TProxy(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_base.h:297:17: required from ‘typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 297 | return value(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_svg.h:352:96: required from ‘void seqan::_printRead(SVGFile&, const Tag&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TFormatTag = TagRaw_; TContigGaps = Gaps >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 352 | if (lastWasGap != inGap || inGap != static_cast(isGap(cit)) || (!inGap && convert(*cit) != convert(*it))) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2278:14: required from ‘void seqan::printAlignment(TStream&, const Tag&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = SVGFile; TFormatTag = TagRaw_; TSpec = SnpStoreSpec_; TConfig = FragmentStoreConfig; TContigId = int; TPos = long int; TNum = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2278 | _printRead(stream, format, layout, contigGaps, readGaps, align, line); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_consensus_realign.h:633:27: required from ‘void reAlign(seqan::FragmentStore&, TId, TBandwidth, bool, TOptions&, const TModel&) [with TSpec = seqan::SnpStoreSpec_; TConfig = seqan::FragmentStoreConfig; TId = int; TBandwidth = int; TOptions = MethCallingOptions; TModel = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 633 | printAlignment(svg, Raw(), layout, fragStore, 0, (TContigPos)0, (TContigPos)200, 0, 300); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_realignment.h:245:12: required from ‘void doRealigning(TFragmentStore&, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, TMethOptions&, TOptions&) [with TFragmentStore = seqan::FragmentStore; TMethOptions = MethCallingOptions; TOptions = SNPCallingOptions; typename TFragmentStore::TContigPos = long int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 245 | reAlign(fragmentStore, 0, bandWidth, true, methOptions, BsSimple()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.h:1231:29: required from ‘void doCheckRealignCall(TFragmentStore&, TContigPos, TContigPos, TContigPos, TSetContigAnchorGaps&, TVcfStream&, TBedStream&, TMethOptions&, TOptions&) [with TFragmentStore = seqan::FragmentStore; TContigPos = long int; TSetContigAnchorGaps = seqan::String, seqan::Alloc<> >, seqan::Alloc<> >; TVcfStream = seqan::VcfStream; TBedStream = seqan::BedStream; TMethOptions = MethCallingOptions; TOptions = SNPCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1231 | doRealigning(fragStoreGroup, groupWindowBegin, groupWindowBegin, methOptions, options); // TODO: do only for reads spanning potential indel position /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:752:35: required from ‘bool detectSNPsForContig(TVcfStream&, TBedStream&, seqan::FragmentStore&, TContigId&, TReaders&, TContexts&, TRecords&, TContigIntervals&, TOptions&, TMethOptions&) [with TVcfStream = seqan::VcfStream; TBedStream = seqan::BedStream; TSpec = seqan::SnpStoreSpec_; TContigId = int; TReaders = seqan::String, seqan::SinglePass >*>; TContexts = seqan::String > > > >; TRecords = seqan::String; TContigIntervals = seqan::String > >; TOptions = SNPCallingOptions; TMethOptions = MethCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 752 | doCheckRealignCall(fragmentStoreTmp, startCoord, currentWindowBegin, currentWindowEnd, setContigAnchorGaps, vcfStream, bedStream, methOptions, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:919:32: required from ‘int detectSNPs(SNPCallingOptions&, TMethOptions&) [with TMethOptions = MethCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 919 | detectSNPsForContig(tempVcfStream, tempBedStream, fragmentStore1, currContigId, recordReaders, contexts, records, contigIntervals, options, methOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:1286:28: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1286 | int result = detectSNPs(options, methOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:100:15: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 100 | : data_iterator(_it) | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h: In instantiation of ‘seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:211:12: required from ‘typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 211 | return TProxy(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_base.h:297:17: required from ‘typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 297 | return value(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_svg.h:352:119: required from ‘void seqan::_printRead(SVGFile&, const Tag&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TFormatTag = TagRaw_; TContigGaps = Gaps >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 352 | if (lastWasGap != inGap || inGap != static_cast(isGap(cit)) || (!inGap && convert(*cit) != convert(*it))) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2278:14: required from ‘void seqan::printAlignment(TStream&, const Tag&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = SVGFile; TFormatTag = TagRaw_; TSpec = SnpStoreSpec_; TConfig = FragmentStoreConfig; TContigId = int; TPos = long int; TNum = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 2278 | _printRead(stream, format, layout, contigGaps, readGaps, align, line); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_consensus_realign.h:633:27: required from ‘void reAlign(seqan::FragmentStore&, TId, TBandwidth, bool, TOptions&, const TModel&) [with TSpec = seqan::SnpStoreSpec_; TConfig = seqan::FragmentStoreConfig; TId = int; TBandwidth = int; TOptions = MethCallingOptions; TModel = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 633 | printAlignment(svg, Raw(), layout, fragStore, 0, (TContigPos)0, (TContigPos)200, 0, 300); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_realignment.h:245:12: required from ‘void doRealigning(TFragmentStore&, typename TFragmentStore::TContigPos, typename TFragmentStore::TContigPos, TMethOptions&, TOptions&) [with TFragmentStore = seqan::FragmentStore; TMethOptions = MethCallingOptions; TOptions = SNPCallingOptions; typename TFragmentStore::TContigPos = long int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 245 | reAlign(fragmentStore, 0, bandWidth, true, methOptions, BsSimple()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.h:1231:29: required from ‘void doCheckRealignCall(TFragmentStore&, TContigPos, TContigPos, TContigPos, TSetContigAnchorGaps&, TVcfStream&, TBedStream&, TMethOptions&, TOptions&) [with TFragmentStore = seqan::FragmentStore; TContigPos = long int; TSetContigAnchorGaps = seqan::String, seqan::Alloc<> >, seqan::Alloc<> >; TVcfStream = seqan::VcfStream; TBedStream = seqan::BedStream; TMethOptions = MethCallingOptions; TOptions = SNPCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1231 | doRealigning(fragStoreGroup, groupWindowBegin, groupWindowBegin, methOptions, options); // TODO: do only for reads spanning potential indel position /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:752:35: required from ‘bool detectSNPsForContig(TVcfStream&, TBedStream&, seqan::FragmentStore&, TContigId&, TReaders&, TContexts&, TRecords&, TContigIntervals&, TOptions&, TMethOptions&) [with TVcfStream = seqan::VcfStream; TBedStream = seqan::BedStream; TSpec = seqan::SnpStoreSpec_; TContigId = int; TReaders = seqan::String, seqan::SinglePass >*>; TContexts = seqan::String > > > >; TRecords = seqan::String; TContigIntervals = seqan::String > >; TOptions = SNPCallingOptions; TMethOptions = MethCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 752 | doCheckRealignCall(fragmentStoreTmp, startCoord, currentWindowBegin, currentWindowEnd, setContigAnchorGaps, vcfStream, bedStream, methOptions, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:919:32: required from ‘int detectSNPs(SNPCallingOptions&, TMethOptions&) [with TMethOptions = MethCallingOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 919 | detectSNPsForContig(tempVcfStream, tempBedStream, fragmentStore1, currContigId, recordReaders, contexts, records, contigIntervals, options, methOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar.cpp:1286:28: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1286 | int result = detectSNPs(options, methOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/proxy_iterator.h:100:15: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 100 | : data_iterator(_it) | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:56, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h: In function ‘unsigned int seqan::cigarToGapAnchorRead(const TCigarString&, TGaps&) [with TCigarString = String >; TGaps = Gaps >, AnchorGaps, Alloc<> > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:534:27: warning: this statement may fall through [-Wimplicit-fallthrough=] 534 | insertGaps(it, cigar[i].count); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:535:13: note: here 535 | case 'I': | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h: In function ‘unsigned int seqan::cigarToGapAnchorContig(const TCigarString&, TGaps&) [with TCigarString = String >; TGaps = Gaps, Alloc<> > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:564:27: warning: this statement may fall through [-Wimplicit-fallthrough=] 564 | insertGaps(it, cigar[i].count); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:565:13: note: here 565 | case 'D': | ^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_score.h: In function ‘void seqan::assignTargetFreqs(Score >&, const TString&, TMethOptions&, BsTop&) [with TValue = double; TString = String, double> >; TBsProfileScore = const Tag; TModel = Tag; TCellDescriptor = Tag; TMethOptions = MethCallingOptions]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_score.h:190:38: warning: this statement may fall through [-Wimplicit-fallthrough=] 190 | me.targetFreqs[i][3] += ((1.0-estMethLevel)/sum)/4.0; // T | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_score.h:191:13: note: here 191 | case -1: // Ref gap | ^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_score.h: In function ‘void seqan::assignTargetFreqs(Score >&, const TString&, TMethOptions&, BsTop&) [with TValue = double; TString = String, double> >; TBsProfileScore = const Tag; TModel = Tag; TCellDescriptor = Tag; TMethOptions = MethCallingOptions]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_score.h:190:38: warning: this statement may fall through [-Wimplicit-fallthrough=] 190 | me.targetFreqs[i][3] += ((1.0-estMethLevel)/sum)/4.0; // T | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_score.h:191:13: note: here 191 | case -1: // Ref gap | ^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_score.h: In function ‘void seqan::assignTargetFreqs(Score >&, const TString&, TMethOptions&, BsBottom&) [with TValue = double; TString = String, double> >; TBsProfileScore = const Tag; TModel = Tag; TCellDescriptor = Tag; TMethOptions = MethCallingOptions]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_score.h:265:38: warning: this statement may fall through [-Wimplicit-fallthrough=] 265 | me.targetFreqs[i][3] += (1.0/sum)/4.0; // T | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_score.h:266:13: note: here 266 | case -1: // Ref gap | ^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_score.h: In function ‘void seqan::assignTargetFreqs(Score >&, const TString&, TMethOptions&, BsBottom&) [with TValue = double; TString = String, double> >; TBsProfileScore = const Tag; TModel = Tag; TCellDescriptor = Tag; TMethOptions = MethCallingOptions]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_score.h:265:38: warning: this statement may fall through [-Wimplicit-fallthrough=] 265 | me.targetFreqs[i][3] += (1.0/sum)/4.0; // T | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_score.h:266:13: note: here 266 | case -1: // Ref gap | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate >, long double, unsigned long, seqan::AllocateStorage_>(seqan::String >&, long double*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage(seqan::String >&, unsigned long)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, unsigned long>(seqan::String >&, unsigned long)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, unsigned long>(seqan::String >&, unsigned long, seqan::Tag)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ > >(seqan::String >&, seqan::Size > >::Type)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize >, unsigned long>(seqan::String >&, unsigned long)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack > >(seqan::String >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘adjustConstantsSize >, seqan::Alloc >, seqan::Alloc >, char>(seqan::String >, seqan::Alloc >, seqan::Alloc >&, char, seqan::Tag const&)void [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_calling.h:351:22: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551584’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘adjustConstantsSize >, seqan::Alloc >, seqan::Alloc >, char>(seqan::String >, seqan::Alloc >, seqan::Alloc >&, char, seqan::Tag const&)void [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, long double, unsigned long, seqan::AllocateStorage_>(seqan::String >&, long double*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage(seqan::String >&, unsigned long)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, unsigned long>(seqan::String >&, unsigned long)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, unsigned long>(seqan::String >&, unsigned long, seqan::Tag)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ > >(seqan::String >&, seqan::Size > >::Type)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize >, unsigned long>(seqan::String >&, unsigned long)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack > >(seqan::String >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘adjustConstantsSize >, seqan::Alloc >, seqan::Alloc >, char>(seqan::String >, seqan::Alloc >, seqan::Alloc >&, char, seqan::Tag const&)void [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_calling.h:352:22: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551584’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘adjustConstantsSize >, seqan::Alloc >, seqan::Alloc >, char>(seqan::String >, seqan::Alloc >, seqan::Alloc >&, char, seqan::Tag const&)void [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, long double, unsigned long, seqan::AllocateStorage_>(seqan::String >&, long double*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage(seqan::String >&, unsigned long)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, unsigned long>(seqan::String >&, unsigned long)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, unsigned long>(seqan::String >&, unsigned long, seqan::Tag)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ > >(seqan::String >&, seqan::Size > >::Type)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize >, unsigned long>(seqan::String >&, unsigned long)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack > >(seqan::String >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘adjustConstantsSize >, seqan::Alloc >, seqan::Alloc >, char>(seqan::String >, seqan::Alloc >, seqan::Alloc >&, char, seqan::Tag const&)void [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_calling.h:353:22: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551584’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘adjustConstantsSize >, seqan::Alloc >, seqan::Alloc >, char>(seqan::String >, seqan::Alloc >, seqan::Alloc >&, char, seqan::Tag const&)void [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, long double, unsigned long, seqan::AllocateStorage_>(seqan::String >&, long double*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage(seqan::String >&, unsigned long)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, unsigned long>(seqan::String >&, unsigned long)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, unsigned long>(seqan::String >&, unsigned long, seqan::Tag)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ > >(seqan::String >&, seqan::Size > >::Type)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize >, unsigned long>(seqan::String >&, unsigned long)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack > >(seqan::String >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘adjustConstantsSize >, seqan::Alloc >, seqan::Alloc >, char>(seqan::String >, seqan::Alloc >, seqan::Alloc >&, char, seqan::Tag const&)void [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_calling.h:354:22: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551584’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘adjustConstantsSize >, seqan::Alloc >, seqan::Alloc >, char>(seqan::String >, seqan::Alloc >, seqan::Alloc >&, char, seqan::Tag const&)void [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, long double, unsigned long, seqan::AllocateStorage_>(seqan::String >&, long double*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage(seqan::String >&, unsigned long)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, unsigned long>(seqan::String >&, unsigned long)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, unsigned long>(seqan::String >&, unsigned long, seqan::Tag)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ > >(seqan::String >&, seqan::Size > >::Type)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize >, unsigned long>(seqan::String >&, unsigned long)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack > >(seqan::String >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘adjustConstantsSize >, seqan::Alloc >, seqan::Alloc >, char>(seqan::String >, seqan::Alloc >, seqan::Alloc >&, char, seqan::Tag const&)void [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_calling.h:361:22: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551584’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘adjustConstantsSize >, seqan::Alloc >, seqan::Alloc >, char>(seqan::String >, seqan::Alloc >, seqan::Alloc >&, char, seqan::Tag const&)void [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, long double, unsigned long, seqan::AllocateStorage_>(seqan::String >&, long double*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage(seqan::String >&, unsigned long)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, unsigned long>(seqan::String >&, unsigned long)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, unsigned long>(seqan::String >&, unsigned long, seqan::Tag)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ > >(seqan::String >&, seqan::Size > >::Type)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize >, unsigned long>(seqan::String >&, unsigned long)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack > >(seqan::String >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘adjustConstantsSize >, seqan::Alloc >, seqan::Alloc >, char>(seqan::String >, seqan::Alloc >, seqan::Alloc >&, char, seqan::Tag const&)void [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_calling.h:362:22: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551584’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘adjustConstantsSize >, seqan::Alloc >, seqan::Alloc >, char>(seqan::String >, seqan::Alloc >, seqan::Alloc >&, char, seqan::Tag const&)void [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, long double, unsigned long, seqan::AllocateStorage_>(seqan::String >&, long double*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage(seqan::String >&, unsigned long)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, unsigned long>(seqan::String >&, unsigned long)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, unsigned long>(seqan::String >&, unsigned long, seqan::Tag)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ > >(seqan::String >&, seqan::Size > >::Type)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize >, unsigned long>(seqan::String >&, unsigned long)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack > >(seqan::String >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘adjustConstantsSize >, seqan::Alloc >, seqan::Alloc >, char>(seqan::String >, seqan::Alloc >, seqan::Alloc >&, char, seqan::Tag const&)void [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_calling.h:363:22: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551584’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘adjustConstantsSize >, seqan::Alloc >, seqan::Alloc >, char>(seqan::String >, seqan::Alloc >, seqan::Alloc >&, char, seqan::Tag const&)void [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, long double, unsigned long, seqan::AllocateStorage_>(seqan::String >&, long double*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage(seqan::String >&, unsigned long)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, unsigned long>(seqan::String >&, unsigned long)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, unsigned long>(seqan::String >&, unsigned long, seqan::Tag)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ > >(seqan::String >&, seqan::Size > >::Type)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize >, unsigned long>(seqan::String >&, unsigned long)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack > >(seqan::String >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘adjustConstantsSize >, seqan::Alloc >, seqan::Alloc >, char>(seqan::String >, seqan::Alloc >, seqan::Alloc >&, char, seqan::Tag const&)void [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_calling.h:364:22: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551584’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘adjustConstantsSize >, seqan::Alloc >, seqan::Alloc >, char>(seqan::String >, seqan::Alloc >, seqan::Alloc >&, char, seqan::Tag const&)void [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 35%] Linking CXX executable ../../../bin/casbar cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/bs_tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/casbar.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/casbar.dir/casbar.cpp.o -o ../../../bin/casbar -lrt -L/usr/lib64 -lz In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘obtainId’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_idmanager.h:205:9, inlined from ‘addVertex’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:534:33, inlined from ‘_createVertices’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_interface.h:709:65, inlined from ‘_copyGraph’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:191:50, inlined from ‘_copyGraph’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:213:12, inlined from ‘__ct ’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:110:14, inlined from ‘__ct_base ’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:488:7: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551608’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘__ct_base ’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘obtainId’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_idmanager.h:205:9, inlined from ‘addVertex’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:534:33, inlined from ‘_createVertices’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_interface.h:709:65, inlined from ‘_copyGraph’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:192:24, inlined from ‘_copyGraph’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:213:12, inlined from ‘__ct ’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:110:14, inlined from ‘__ct_base ’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:488:7: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551608’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘__ct_base ’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘adjustConstantsSize.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_calling.h:351:22: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551584’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘adjustConstantsSize.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘adjustConstantsSize.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_calling.h:352:22: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551584’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘adjustConstantsSize.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘adjustConstantsSize.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_calling.h:353:22: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551584’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘adjustConstantsSize.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘adjustConstantsSize.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_calling.h:354:22: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551584’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘adjustConstantsSize.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘adjustConstantsSize.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_calling.h:361:22: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551584’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘adjustConstantsSize.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘adjustConstantsSize.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_calling.h:362:22: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551584’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘adjustConstantsSize.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘adjustConstantsSize.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_calling.h:363:22: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551584’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘adjustConstantsSize.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘adjustConstantsSize.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/casbar_calling.h:364:22: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551584’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘adjustConstantsSize.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 35%] Built target casbar make -f extras/apps/bs_tools/CMakeFiles/four2three.dir/build.make extras/apps/bs_tools/CMakeFiles/four2three.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/bs_tools /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/bs_tools/CMakeFiles/four2three.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/bs_tools/CMakeFiles/four2three.dir/build.make extras/apps/bs_tools/CMakeFiles/four2three.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 35%] Building CXX object extras/apps/bs_tools/CMakeFiles/four2three.dir/four2three.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/bs_tools && /usr/bin/g++ -DSEQAN_DATE=\"\" -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/bs_tools/CMakeFiles/four2three.dir/four2three.cpp.o -MF CMakeFiles/four2three.dir/four2three.cpp.o.d -o CMakeFiles/four2three.dir/four2three.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/four2three.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/stream.h:86, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/four2three.cpp:37: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/four2three.cpp:35: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/fai_index.h:40, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:83: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/four2three.cpp:40: /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/four2three.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/four2three.h:14:34: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 14 | struct ConvertCT : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/four2three.h:23:34: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 23 | struct ConvertGA : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:64: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h: In member function ‘void seqan::SequenceStreamImpl_::_guessFileTypeAndFormatForReadingAndInitialize()’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:310:25: warning: this statement may fall through [-Wimplicit-fallthrough=] 310 | _fileFormat = this->_checkFormat(*_istreamReader); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:313:9: note: here 313 | case SeqIOFileType_::FILE_TYPE_AUTO: | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:51, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools/four2three.cpp:36: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 37%] Linking CXX executable ../../../bin/four2three cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/bs_tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/four2three.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/four2three.dir/four2three.cpp.o -o ../../../bin/four2three -lrt -L/usr/lib64 -lz In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 37%] Built target four2three make -f extras/apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/build.make extras/apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/fx_tools /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/fx_tools /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/build.make extras/apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 37%] Building CXX object extras/apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/fx_bam_coverage.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/fx_tools && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/fx_bam_coverage.cpp.o -MF CMakeFiles/fx_bam_coverage.dir/fx_bam_coverage.cpp.o.d -o CMakeFiles/fx_bam_coverage.dir/fx_bam_coverage.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/fx_tools/fx_bam_coverage.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/fx_tools/fx_bam_coverage.cpp:40: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/sstream:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/fx_tools/fx_bam_coverage.cpp:38: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:48, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/fx_tools/fx_bam_coverage.cpp:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_stream.h:50, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:107: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:44: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1925:45: required from ‘static typename seqan::Size::Type seqan::_Resize_String::resize_(T&, typename seqan::Size::Type, const TValue&) [with T = seqan::String, seqan::Alloc<> >; TValue = seqan::SimpleType; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1925 | TSize new_capacity = reserve(me, new_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1964:50: required from ‘typename seqan::Size >::Type seqan::resize(String&, TSize, const TValue2&, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = unsigned int; TValue2 = SimpleType; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1964 | return _Resize_String >::resize_(me, new_length, val); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2153:18: required from ‘typename seqan::Size::Type seqan::resize(T&, TSize, const TValue&) [with T = String, Alloc<> >; TSize = unsigned int; TValue = SimpleType; typename Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 2153 | return resize(me, new_length, val, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/fai_index.h:426:11: required from ‘int seqan::readRegion(String&, const FaiIndex&, unsigned int, unsigned int, unsigned int) [with TValue = SimpleType; TSpec = Alloc<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 426 | resize(str, toRead, TValue()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/fai_index.h:505:22: required from ‘int seqan::readSequence(String&, const FaiIndex&, unsigned int) [with TValue = SimpleType; TSpec = Alloc<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 505 | return readRegion(str, index, refId, 0, sequenceLength(index, refId)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/fx_tools/fx_bam_coverage.cpp:219:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 219 | if (readSequence(contigSeq, faiIndex, i) != 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 38%] Linking CXX executable ../../../bin/fx_bam_coverage cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/fx_tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/fx_bam_coverage.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/fx_bam_coverage.dir/fx_bam_coverage.cpp.o -o ../../../bin/fx_bam_coverage -lrt -L/usr/lib64 -lz In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 38%] Built target fx_bam_coverage make -f extras/apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/build.make extras/apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/fx_tools /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/fx_tools /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/build.make extras/apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 38%] Building CXX object extras/apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/fx_fastq_stats.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/fx_tools && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/fx_fastq_stats.cpp.o -MF CMakeFiles/fx_fastq_stats.dir/fx_fastq_stats.cpp.o.d -o CMakeFiles/fx_fastq_stats.dir/fx_fastq_stats.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/fx_tools/fx_fastq_stats.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/fx_tools/fx_fastq_stats.cpp:37: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/stl_tree.h:65, from /usr/include/c++/14/map:62, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/fx_tools/fx_fastq_stats.cpp:35: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/fai_index.h:40, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:83, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/fx_tools/fx_fastq_stats.cpp:39: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:44: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/read_fasta_fastq.h:262:12: required from ‘int seqan::_clearAndReserveMemory(TIdString&, TSeqString&, RecordReader >&, const TTag&) [with TIdString = String >; TSeqString = String, Alloc<> >; TFile = String >; TSpec = Tag; TTag = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 262 | reserve(seq, seqLength, Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/read_fasta_fastq.h:580:37: required from ‘int seqan::readRecord(TIdString&, TSeqString&, TQualString&, RecordReader&, const Fasta&) [with TIdString = String >; TSeqString = String, Alloc<> >; TQualString = String >; TFile = String >; TPass = DoublePass >; Fasta = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 580 | int res = _clearAndReserveMemory(meta, seq, reader, Fasta()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:458:40: required from ‘int seqan::SequenceStreamImpl_::readRecord(TId&, TSequence&, TQualities&, const TFormatTag&) [with TId = seqan::String >; TSequence = seqan::String, seqan::Alloc<> >; TQualities = seqan::String >; TFormatTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 458 | res = seqan::readRecord(id, seq, qual, *_mmapReaderDoublePass, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream.h:680:38: required from ‘int seqan::readRecord(TId&, TSequence&, TQualities&, SequenceStream&) [with TId = String >; TSequence = String, Alloc<> >; TQualities = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 680 | res = seqIO._impl->readRecord(id, seq, qual, Fasta()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/fx_tools/fx_fastq_stats.cpp:303:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 303 | if (readRecord(id, seq, quals, inStream) != 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:64: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h: In member function ‘void seqan::SequenceStreamImpl_::_guessFileTypeAndFormatForReadingAndInitialize()’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:310:25: warning: this statement may fall through [-Wimplicit-fallthrough=] 310 | _fileFormat = this->_checkFormat(*_istreamReader); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:313:9: note: here 313 | case SeqIOFileType_::FILE_TYPE_AUTO: | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/new_allocator.h:34, from /usr/include/c++/14/x86_64-redhat-linux/bits/c++allocator.h:33, from /usr/include/c++/14/bits/allocator.h:46, from /usr/include/c++/14/bits/stl_tree.h:64: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 38%] Linking CXX executable ../../../bin/fx_fastq_stats cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/fx_tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/fx_fastq_stats.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/fx_fastq_stats.dir/fx_fastq_stats.cpp.o -o ../../../bin/fx_fastq_stats -lrt -L/usr/lib64 -lz In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 38%] Built target fx_fastq_stats make -f extras/apps/gustaf/CMakeFiles/gustaf.dir/build.make extras/apps/gustaf/CMakeFiles/gustaf.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/gustaf /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/gustaf/CMakeFiles/gustaf.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/gustaf/CMakeFiles/gustaf.dir/build.make extras/apps/gustaf/CMakeFiles/gustaf.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 40%] Building CXX object extras/apps/gustaf/CMakeFiles/gustaf.dir/gustaf.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/gustaf && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/gustaf/CMakeFiles/gustaf.dir/gustaf.cpp.o -MF CMakeFiles/gustaf.dir/gustaf.cpp.o.d -o CMakeFiles/gustaf.dir/gustaf.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/gustaf.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:28, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/gustaf.cpp:27: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/gustaf.cpp:24: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:45:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:54:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:63:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 63 | struct filterI3 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:401:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 401 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:507:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 507 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:78: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:42:48: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public ::std::binary_function < PageBucket, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:57:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:257:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 257 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:372:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 372 | struct insertBucket : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:44: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_set.h:373:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:404:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 404 | public::std::binary_function // functor for operator> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:744:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 744 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:760:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 760 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:80: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:854:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 854 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:902:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 902 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:970:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 970 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1039:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1039 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1073:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1073 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1121:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1121 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2093:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2093 | struct _qgramComp : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2112:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2112 | public ::std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:46:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 46 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:85:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 85 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:96: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:98:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 98 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:112:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 112 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:127:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:144:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:154:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:99: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:110:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 110 | public ::std::binary_function < SkewDCStream, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:143:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 143 | public ::std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:100: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:99:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 99 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:118:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:132:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 132 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:154:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:175:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 175 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:185:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 185 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:103: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:57:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:97:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 97 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:141:29: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:109: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:59:42: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:164:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, KasaiOriginal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:312:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 312 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:313:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 313 | LCP[isa - 1] = h; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:379:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 379 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:380:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 380 | LCP[i] = h | mark; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const StringSet&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:483:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 483 | for(TSize hMax = _min(getValueI2((TPair)dec), n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:484:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 484 | LCP[i] = h | mark; | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:113: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h:144:50: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:585:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 585 | public ::std::binary_function< Pair, Pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:128: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In function ‘void seqan::_storeWotdChildren(Index > >&, TSize, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:504:27: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 504 | } else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:506:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 506 | for (TDirSize d = index.sentinelBound - index.sentinelOcc; d != index.sentinelBound; ++d) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:136: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h:149:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 149 | struct RepeatLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:157: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h: In function ‘typename seqan::Iterator >::Type seqan::_upperBoundLcpe(TText&, TSA&, SearchTreeIterator, TQuery&, TDiff_, TDiff_)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1498:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1498 | for(; i && ordEqual(*t, convert(*q)); --i, ++t, ++q) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1501 | if (q == qEnd || t == tEnd || !ordGreater(*t, convert(*q))) { | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seeds.h:52, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:29: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:30: /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar_types.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar_types.h:154:32: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | struct LessPos : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar_types.h:206:35: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 206 | struct LessLength : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60, from /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/parse_lm.h:47, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/create_stellarmatches_from_file.h:41, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/msplazer.h:44, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/msplazer_parseOptions.h:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/gustaf.cpp:28: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/msplazer_out.h:41, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/msplazer_main.h:43, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/gustaf.cpp:30: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h: In function ‘int seqan::writeRecord(TStream&, const VcfRecord&, const VcfIOContext&, const Vcf&)’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:190:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 190 | else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:192:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 192 | streamWriteChar(stream, '\t'); | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h: In instantiation of ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/stellar_routines.h:197:20: required from ‘void _getStellarMatches(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet > >&, StellarOptions&, TMatches&) [with TSequence = seqan::String, seqan::Alloc<> >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > > >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:192:9: note: 197 | stellar(swiftFinder, swiftPattern, stellarOptions.epsilon, stellarOptions.minLength, stellarOptions.xDrop, /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:192:9: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 198 | stellarOptions.disableThresh, stellarOptions.compactThresh, stellarOptions.numMatches, /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:192:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 199 | stellarOptions.verbose, databaseIDs[i], true, stellarMatches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:192:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/msplazer_main.h:145:27: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:192:9: note: 145 | _getStellarMatches(queries, databases, databaseIDs, stellarOptions, stellarMatches); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:192:9: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:688:47: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 688 | Segment finderSegment(finderInfixSeq, | ^~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:93, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/gustaf.cpp:25: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:701:74: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 701 | Segment::Type, InfixSegment> patternSegment(patternInfixSeq, | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: initializing argument 1 of ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ 151 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:92: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:152:29: required from ‘seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 152 | data_host(_toPointer(_host)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:688:33: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 688 | Segment finderSegment(finderInfixSeq, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/stellar_routines.h:197:20: required from ‘void _getStellarMatches(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet > >&, StellarOptions&, TMatches&) [with TSequence = seqan::String, seqan::Alloc<> >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 197 | stellar(swiftFinder, swiftPattern, stellarOptions.epsilon, stellarOptions.minLength, stellarOptions.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 198 | stellarOptions.disableThresh, stellarOptions.compactThresh, stellarOptions.numMatches, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 199 | stellarOptions.verbose, databaseIDs[i], true, stellarMatches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/msplazer_main.h:145:27: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: 145 | _getStellarMatches(queries, databases, databaseIDs, stellarOptions, stellarMatches); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:151:46: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h: In instantiation of ‘void _splitAtXDrops(TAlign&, seqan::Score >&, TScoreValue1, TScoreValue2, seqan::String&) [with TAlign = seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TScoreValue = int; TScoreValue1 = int; TScoreValue2 = int]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:624:23: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 624 | _splitAtXDrops(localAlign, scoreMatrix, scoreDropOff, minScore, seedAlignments); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/stellar_routines.h:197:20: required from ‘void _getStellarMatches(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet > >&, StellarOptions&, TMatches&) [with TSequence = seqan::String, seqan::Alloc<> >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 197 | stellar(swiftFinder, swiftPattern, stellarOptions.epsilon, stellarOptions.minLength, stellarOptions.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 198 | stellarOptions.disableThresh, stellarOptions.compactThresh, stellarOptions.numMatches, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 199 | stellarOptions.verbose, databaseIDs[i], true, stellarMatches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/msplazer_main.h:145:27: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 145 | _getStellarMatches(queries, databases, databaseIDs, stellarOptions, stellarMatches); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:199:24: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 199 | TAlign ali(align); | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:89: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_smart_pointer.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_type.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::_toParameter(const T&) [with T = Segment, Alloc<> >, InfixSegment>; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:252:32: required from ‘typename seqan::Parameter_::Type seqan::host(const Segment&) [with THost_ = Segment, Alloc<> >, InfixSegment>; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 252 | return _toParameter(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:587:88: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 587 | TScore mismatchIndel = (TScore)_max((TScore) ceil(-1/eps) + 1, -(TScore)length(host(infH))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/stellar_routines.h:197:20: required from ‘void _getStellarMatches(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet > >&, StellarOptions&, TMatches&) [with TSequence = seqan::String, seqan::Alloc<> >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 197 | stellar(swiftFinder, swiftPattern, stellarOptions.epsilon, stellarOptions.minLength, stellarOptions.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 198 | stellarOptions.disableThresh, stellarOptions.compactThresh, stellarOptions.numMatches, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 199 | stellarOptions.verbose, databaseIDs[i], true, stellarMatches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/msplazer_main.h:145:27: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 145 | _getStellarMatches(queries, databases, databaseIDs, stellarOptions, stellarMatches); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_type.h:444:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 444 | return _object; | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String, Alloc<> >; TSpec = Dependent >; TShape = Shape, UngappedShape<0> >; TDir = String >; TBucketMap = BucketMap; TStepSize = long unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1593:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1593 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet, Alloc<> >, Dependent > >; TShapeSpec = UngappedShape<0>; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> >, Dependent > >; TSpec = IndexQGram, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Dependent > >; TSpec = IndexQGram, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/stellar_routines.h:185:17: required from ‘void _getStellarMatches(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet > >&, StellarOptions&, TMatches&) [with TSequence = seqan::String, seqan::Alloc<> >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 185 | indexRequire(qgramIndex, QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/msplazer_main.h:145:27: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 145 | _getStellarMatches(queries, databases, databaseIDs, stellarOptions, stellarMatches); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:55, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:71: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String, Alloc<> >; TSpec = Dependent >; TShape = Shape, UngappedShape<0> >; TDir = String >; TBucketMap = BucketMap; TStepSize = long unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1604:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1604 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet, Alloc<> >, Dependent > >; TShapeSpec = UngappedShape<0>; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> >, Dependent > >; TSpec = IndexQGram, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> >, Dependent > >; TSpec = IndexQGram, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/stellar_routines.h:185:17: required from ‘void _getStellarMatches(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet > >&, StellarOptions&, TMatches&) [with TSequence = seqan::String, seqan::Alloc<> >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 185 | indexRequire(qgramIndex, QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/msplazer_main.h:145:27: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 145 | _getStellarMatches(queries, databases, databaseIDs, stellarOptions, stellarMatches); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:206: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h: In instantiation of ‘void seqan::integrateAlign(Align&, const Align&, const String&) [with TSource1 = String, Alloc<> >; TSpec1 = Tag; TSource2 = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSpec2 = Tag; TPos = long int]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar_extension.h:785:16: required from ‘void integrateAlign(seqan::Align&, const seqan::Align::Type, seqan::InfixSegment>, TSpec2>&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec1 = seqan::Tag; TSpec2 = seqan::Tag; typename seqan::Infix::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 785 | integrateAlign(align, infixAlign, viewPos); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar_extension.h:809:19: required from ‘bool _extendAndExtract(const seqan::Align, seqan::InfixSegment> >&, TScoreValue, const TScore&, const seqan::Segment::Type, seqan::InfixSegment>&, const seqan::Segment::Type, seqan::InfixSegment>&, seqan::ExtensionDirection, TSize, TEps, TAlign&) [with TScoreValue = int; TScore = seqan::Score >; TSequence = seqan::String, seqan::Alloc<> >; TSize = int; TEps = double; TAlign = seqan::Align, seqan::Alloc<> >, seqan::Tag >; typename seqan::Infix::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 809 | integrateAlign(align, localAlign); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:643:26: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 643 | if (!_extendAndExtract(*aliIt, scoreDropOff, scoreMatrix, infH, infV, direction, minLength, eps, align)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/stellar_routines.h:197:20: required from ‘void _getStellarMatches(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet > >&, StellarOptions&, TMatches&) [with TSequence = seqan::String, seqan::Alloc<> >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 197 | stellar(swiftFinder, swiftPattern, stellarOptions.epsilon, stellarOptions.minLength, stellarOptions.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 198 | stellarOptions.disableThresh, stellarOptions.compactThresh, stellarOptions.numMatches, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 199 | stellarOptions.verbose, databaseIDs[i], true, stellarMatches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/msplazer_main.h:145:27: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 145 | _getStellarMatches(queries, databases, databaseIDs, stellarOptions, stellarMatches); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h:124:12: warning: implicitly-declared ‘constexpr seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >& seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >::operator=(const seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >&)’ is deprecated [-Wdeprecated-copy] 124 | it = iter(row(align, i), value(viewPos, i)); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:77: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: because ‘seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >’ has user-provided ‘seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps, seqan::Alloc<> >, seqan::Tag >]’ 91 | Iter(Iter const & other) : | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:101: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h: In instantiation of ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >, seqan::Alloc<> >; TValue = const seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TExpand = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >; TTargetSpec = Alloc<>; TValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = String, Alloc<> >, InfixSegment>, InfixSegment>, Tag >, Alloc<> >; TValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:222:28: required from ‘void _splitAtXDrops(TAlign&, seqan::Score >&, TScoreValue1, TScoreValue2, seqan::String&) [with TAlign = seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TScoreValue = int; TScoreValue1 = int; TScoreValue2 = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 222 | appendValue(alignmentString, ali); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:624:23: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 624 | _splitAtXDrops(localAlign, scoreMatrix, scoreDropOff, minScore, seedAlignments); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/stellar_routines.h:197:20: required from ‘void _getStellarMatches(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet > >&, StellarOptions&, TMatches&) [with TSequence = seqan::String, seqan::Alloc<> >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 197 | stellar(swiftFinder, swiftPattern, stellarOptions.epsilon, stellarOptions.minLength, stellarOptions.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 198 | stellarOptions.disableThresh, stellarOptions.compactThresh, stellarOptions.numMatches, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 199 | stellarOptions.verbose, databaseIDs[i], true, stellarMatches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/msplazer_main.h:145:27: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 145 | _getStellarMatches(queries, databases, databaseIDs, stellarOptions, stellarMatches); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1475:37: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 1475 | typename Value::Type temp_copy(_value); //temp copy because resize could invalidate _value | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_type.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::_toParameter(T&) [with T = Segment, Alloc<> >, InfixSegment>; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:244:32: required from ‘typename seqan::Parameter_::Type seqan::host(Segment&) [with THost_ = Segment, Alloc<> >, InfixSegment>; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 244 | return _toParameter(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar_extension.h:780:28: required from ‘void integrateAlign(seqan::Align&, const seqan::Align::Type, seqan::InfixSegment>, TSpec2>&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec1 = seqan::Tag; TSpec2 = seqan::Tag; typename seqan::Infix::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 780 | pos += beginPosition(host(source(row(infixAlign, i)))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar_extension.h:809:19: required from ‘bool _extendAndExtract(const seqan::Align, seqan::InfixSegment> >&, TScoreValue, const TScore&, const seqan::Segment::Type, seqan::InfixSegment>&, const seqan::Segment::Type, seqan::InfixSegment>&, seqan::ExtensionDirection, TSize, TEps, TAlign&) [with TScoreValue = int; TScore = seqan::Score >; TSequence = seqan::String, seqan::Alloc<> >; TSize = int; TEps = double; TAlign = seqan::Align, seqan::Alloc<> >, seqan::Tag >; typename seqan::Infix::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 809 | integrateAlign(align, localAlign); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:643:26: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 643 | if (!_extendAndExtract(*aliIt, scoreDropOff, scoreMatrix, infH, infV, direction, minLength, eps, align)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/stellar_routines.h:197:20: required from ‘void _getStellarMatches(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet > >&, StellarOptions&, TMatches&) [with TSequence = seqan::String, seqan::Alloc<> >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 197 | stellar(swiftFinder, swiftPattern, stellarOptions.epsilon, stellarOptions.minLength, stellarOptions.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 198 | stellarOptions.disableThresh, stellarOptions.compactThresh, stellarOptions.numMatches, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 199 | stellarOptions.verbose, databaseIDs[i], true, stellarMatches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/msplazer_main.h:145:27: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 145 | _getStellarMatches(queries, databases, databaseIDs, stellarOptions, stellarMatches); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_type.h:437:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 437 | return _object; | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:55, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h: In instantiation of ‘void seqan::findIntervals(const Graph&, const TPropertyMap&, TVertexDescriptor&, TValue, TValue, String&) [with TSpec = Directed >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TVertexDescriptor = unsigned int; TValue = unsigned int; TCargo = unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:1917:15: required from ‘void seqan::findIntervals(const Graph&, const TPropertyMap&, TValue, TValue, String&) [with TSpec = Directed >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TValue = unsigned int; TCargo = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1917 | findIntervals(g, pm, act_knot, query_begin, query_end, result); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:1898:15: required from ‘void seqan::findIntervals(const IntervalTree&, TValue, TValue, String&) [with TValue = unsigned int; TCargo = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1898 | findIntervals(tree.g,tree.pm,query_begin,query_end,result); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/gustaf_matepairs.h:240:18: required from ‘bool _checkRightMateMatches(const TMatch&, const seqan::String&, const TMSplazerChain&, const MSplazerOptions&) [with TMatch = StellarMatch, seqan::Alloc<> >, seqan::String > >; TMSplazerChain = MSplazerChain >, unsigned int, seqan::String, SparsePropertyMap, seqan::Alloc<> >, seqan::String > >, unsigned int>, seqan::String, seqan::Alloc<> >, seqan::String > >, seqan::Alloc<> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 240 | findIntervals(gustafChain.rightMateTree, mateIntervalBegin, mateIntervalEnd, confMateMatches); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/gustaf_matepairs.h:278:42: required from ‘bool _checkMateMatches(const TMatch&, const seqan::String&, const TMSplazerChain&, const MSplazerOptions&) [with TMatch = StellarMatch, seqan::Alloc<> >, seqan::String > >; TMSplazerChain = MSplazerChain >, unsigned int, seqan::String, SparsePropertyMap, seqan::Alloc<> >, seqan::String > >, unsigned int>, seqan::String, seqan::Alloc<> >, seqan::String > >, seqan::Alloc<> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 278 | return _checkRightMateMatches(sMatch, queryMatches, gustafChain, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/gustaf_matepairs.h:345:35: required from ‘void _initialiseGraphMatePairs(QueryMatches >&, TMSplazerChain&, const MSplazerOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TMSplazerChain = MSplazerChain >, unsigned int, seqan::String, SparsePropertyMap, seqan::Alloc<> >, seqan::String > >, unsigned int>, seqan::String, seqan::Alloc<> >, seqan::String > >, seqan::Alloc<> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 345 | if (!_checkMateMatches(queryMatches.matches[i], queryMatches.matches, chain, options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/msplazer_algorithms.h:644:42: required from ‘void _chainQueryMatches(seqan::StringSet > >&, seqan::String&, seqan::String&, const seqan::StringSet >&, seqan::StringSet >&, seqan::String >&, const MSplazerOptions&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TScoreAlloc = seqan::String; TMSplazerChain = MSplazerChain >, unsigned int, seqan::String, SparsePropertyMap, seqan::Alloc<> >, seqan::String > >, unsigned int>, seqan::String, seqan::Alloc<> >, seqan::String > >, seqan::Alloc<> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 644 | _initialiseGraphMatePairs(stellarMatches[i], chain, msplazerOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/msplazer_main.h:224:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 224 | _chainQueryMatches(stellarMatches, distanceScores, queryChains, queryIDs, queries, readJoinPositions, msplazerOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:1949:26: warning: implicitly-declared ‘seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)’ is deprecated [-Wdeprecated-copy] 1949 | act_prop = property(pm,act_knot); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: because ‘seqan::IntervalTreeNode, seqan::StorePointsOnly>’ has user-provided ‘seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]’ 398 | IntervalTreeNode(IntervalTreeNode const & other): | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:1961:43: warning: implicitly-declared ‘seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)’ is deprecated [-Wdeprecated-copy] 1961 | next_prop = property(pm,targetVertex(it)); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: because ‘seqan::IntervalTreeNode, seqan::StorePointsOnly>’ has user-provided ‘seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]’ 398 | IntervalTreeNode(IntervalTreeNode const & other): | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:1982:51: warning: implicitly-declared ‘seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)’ is deprecated [-Wdeprecated-copy] 1982 | next_prop = property(pm,targetVertex(it)); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: because ‘seqan::IntervalTreeNode, seqan::StorePointsOnly>’ has user-provided ‘seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]’ 398 | IntervalTreeNode(IntervalTreeNode const & other): | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:69, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >; TSource = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >; TValue2 = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >; typename Reference > >::Type = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >; TSpec = Swift >; typename Host >::Type = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:447:13: required from ‘typename seqan::Needle >::Type& seqan::needle(Pattern&) [with TNeedle = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >; TSpec = Swift >; typename Needle >::Type = Index, Alloc<> >, Dependent > >, IndexQGram, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 447 | return host(obj); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:698:78: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 698 | TPatternSeq patternSeq = getSequenceByNo(pattern.curSeqNo, indexText(needle(pattern))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/stellar_routines.h:197:20: required from ‘void _getStellarMatches(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet > >&, StellarOptions&, TMatches&) [with TSequence = seqan::String, seqan::Alloc<> >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 197 | stellar(swiftFinder, swiftPattern, stellarOptions.epsilon, stellarOptions.minLength, stellarOptions.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 198 | stellarOptions.disableThresh, stellarOptions.compactThresh, stellarOptions.numMatches, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 199 | stellarOptions.verbose, databaseIDs[i], true, stellarMatches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/msplazer_main.h:145:27: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 145 | _getStellarMatches(queries, databases, databaseIDs, stellarOptions, stellarMatches); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >& seqan::Index, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >::operator=(const seqan::Index, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:81: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: because ‘seqan::Index, seqan::Alloc<> >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >’ has user-provided ‘seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::StringSet, seqan::Alloc<> >, seqan::Dependent > >; TShapeSpec = seqan::UngappedShape<0>]’ 159 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h: In instantiation of ‘void seqan::integrateAlign(Align&, const Align&, const String&) [with TSource1 = String, Alloc<> >; TSpec1 = Tag; TSource2 = Segment, Alloc<> >, InfixSegment>; TSpec2 = Tag; TPos = long int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h:154:19: required from ‘void seqan::integrateAlign(Align&, const Align::Type, TSpec2>&) [with TSource = String, Alloc<> >; TSpec1 = Tag; TSpec2 = Tag; typename Infix::Type = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 154 | integrateAlign(align, infixAlign, viewPos); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar_extension.h:620:16: required from ‘void _tracebackLeft(const TMatrix&, const TCoord&, const seqan::Segment&, const seqan::Segment&, TSeed&, TSeed&, TPos, TPos, TAlign&) [with TMatrix = seqan::String >; TCoord = seqan::Pair; TSequence = seqan::String, seqan::Alloc<> >; TSeed = seqan::Seed >; TPos = long unsigned int; TAlign = seqan::Align, seqan::Alloc<> >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 620 | integrateAlign(align, infixAlign); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar_extension.h:753:17: required from ‘bool _bestExtension(const TInfix&, const TInfix&, TSeed&, TSeed&, TPos, TPos, const TScore&, TDir, TSize, TEps, TAlign&) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSeed = seqan::Seed >; TPos = long unsigned int; TDir = seqan::ExtensionDirection; TScore = seqan::Score >; TSize = int; TEps = double; TAlign = seqan::Align, seqan::Alloc<> >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 753 | _tracebackLeft(matrixLeft, (*endPair.i1).coord, infH, infV, seed, seedOld, endLeftH, endLeftV, align); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar_extension.h:860:22: required from ‘bool _extendAndExtract(const seqan::Align, seqan::InfixSegment> >&, TScoreValue, const TScore&, const seqan::Segment::Type, seqan::InfixSegment>&, const seqan::Segment::Type, seqan::InfixSegment>&, seqan::ExtensionDirection, TSize, TEps, TAlign&) [with TScoreValue = int; TScore = seqan::Score >; TSequence = seqan::String, seqan::Alloc<> >; TSize = int; TEps = double; TAlign = seqan::Align, seqan::Alloc<> >, seqan::Tag >; typename seqan::Infix::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 860 | if (!_bestExtension(infixH, infixV, seed, seedOld, alignLen, alignErr, scoreMatrix, direction, minLength, eps, align)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:643:26: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 643 | if (!_extendAndExtract(*aliIt, scoreDropOff, scoreMatrix, infH, infV, direction, minLength, eps, align)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/stellar_routines.h:197:20: required from ‘void _getStellarMatches(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet > >&, StellarOptions&, TMatches&) [with TSequence = seqan::String, seqan::Alloc<> >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 197 | stellar(swiftFinder, swiftPattern, stellarOptions.epsilon, stellarOptions.minLength, stellarOptions.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 198 | stellarOptions.disableThresh, stellarOptions.compactThresh, stellarOptions.numMatches, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 199 | stellarOptions.verbose, databaseIDs[i], true, stellarMatches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/msplazer_main.h:145:27: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 145 | _getStellarMatches(queries, databases, databaseIDs, stellarOptions, stellarMatches); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/alignment_operations.h:124:12: warning: implicitly-declared ‘constexpr seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >& seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >::operator=(const seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >&)’ is deprecated [-Wdeprecated-copy] 124 | it = iter(row(align, i), value(viewPos, i)); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: because ‘seqan::Iter, seqan::Alloc<> >, seqan::Tag >, seqan::GapsIterator > >’ has user-provided ‘seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps, seqan::Alloc<> >, seqan::Tag >]’ 91 | Iter(Iter const & other) : | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:131:16: required from ‘seqan::String >::String(const seqan::String >&) [with TValue = seqan::SimpleType; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 131 | reserve(*this, std::min(capacity(source), computeGenerousCapacity(source, length(source))), Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/msplazer.h:121:8: required from ‘bool _writeGlobalBreakpoints(const seqan::String&, seqan::StringSet >&, seqan::StringSet&, const MSplazerOptions&, seqan::Vcf) [with TBreakpoint = Breakpoint, seqan::Alloc<> >, seqan::String > >; TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; seqan::Vcf = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 121 | struct Breakpoint /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/msplazer_main.h:271:28: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: 271 | _writeGlobalBreakpoints(globalBreakpoints, databases, databaseIDs, msplazerOptions, Vcf()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_array.h:91:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >*; TParam = seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >*; TParam = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1481:31: required from ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >, seqan::Alloc<> >; TValue = const seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1481 | valueConstruct(begin(me, Standard()) + me_length, temp_copy); //??? this should be valueMoveConstruct /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >; TTargetSpec = Alloc<>; TValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = String, Alloc<> >, InfixSegment>, InfixSegment>, Tag >, Alloc<> >; TValue = Align, Alloc<> >, InfixSegment>, InfixSegment>, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:222:28: required from ‘void _splitAtXDrops(TAlign&, seqan::Score >&, TScoreValue1, TScoreValue2, seqan::String&) [with TAlign = seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TScoreValue = int; TScoreValue1 = int; TScoreValue2 = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 222 | appendValue(alignmentString, ali); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:624:23: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 624 | _splitAtXDrops(localAlign, scoreMatrix, scoreDropOff, minScore, seedAlignments); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/stellar_routines.h:197:20: required from ‘void _getStellarMatches(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet > >&, StellarOptions&, TMatches&) [with TSequence = seqan::String, seqan::Alloc<> >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 197 | stellar(swiftFinder, swiftPattern, stellarOptions.epsilon, stellarOptions.minLength, stellarOptions.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 198 | stellarOptions.disableThresh, stellarOptions.compactThresh, stellarOptions.numMatches, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 199 | stellarOptions.verbose, databaseIDs[i], true, stellarMatches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/msplazer_main.h:145:27: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 145 | _getStellarMatches(queries, databases, databaseIDs, stellarOptions, stellarMatches); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1444:21: required from ‘void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1444 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1465:31: required from ‘void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1465 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:849:31: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String, seqan::Alloc<> >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 849 | arrayConstructMove(old_array, old_array + start, seq_array); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: required from ‘typename seqan::Size >::Type seqan::_clearSpace(String&, TSize, TPosition, TPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long unsigned int; TPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1014 | return ClearSpaceStringBase_ >::_clearSpace_(me, size, pos_begin, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1367:67: required from ‘static void seqan::AppendString_::append_(TTarget&, TSource&) [with TTarget = seqan::String, seqan::Alloc<> >; TSource = const seqan::String, seqan::Alloc<> >; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1367 | typename Size::Type part_length = _clearSpace(target, length(source), target_length, target_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42: required from ‘void seqan::append(String&, const TSource&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = String, Alloc<> >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1421 | AppendString_ >::append_(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1608:11: required from ‘void seqan::append(TTarget&, TSource&) [with TTarget = String, Alloc<> >; TSource = String, Alloc<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1608 | append(target, source, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/gustaf_matepairs.h:177:15: required from ‘bool _importSequences(const seqan::CharString&, const seqan::CharString&, bool, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::String >&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 177 | append(seq, seqL); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/msplazer_main.h:72:30: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 72 | if (!_importSequences(msplazerOptions.queryFile[0], msplazerOptions.queryFile[1], msplazerOptions.revCompl, queries, queryIDs, shortQueryIDs, readJoinPositions)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1589:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1589 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>*; TParam = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Segment, Alloc<> >, InfixSegment>, InfixSegment>*; TParam = Segment, Alloc<> >, InfixSegment>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:606:19: required from ‘typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, InfixSegment>, InfixSegment>, Tag >; TValue = Segment, Alloc<> >, InfixSegment>, InfixSegment>; typename Value::Type = Segment, Alloc<> >, InfixSegment>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 606 | valueConstruct(ret, data); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:735:42: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TValue2 = Segment, Alloc<> >, InfixSegment>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 735 | me.data_value = _holderAllocateObject(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Segment, Alloc<> >, InfixSegment>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Segment, Alloc<> >, InfixSegment>, InfixSegment>; typename Reference > >::Type = Segment, Alloc<> >, InfixSegment>, InfixSegment>&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_array.h:401:10: required from ‘void seqan::assignSource(Gaps >&, const TSequence2&) [with TSequence = Segment, Alloc<> >, InfixSegment>, InfixSegment>; TSequence2 = Segment, Alloc<> >, InfixSegment>, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 401 | value(gaps._source) = source; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:614:17: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 614 | assignSource(row(localAlign, 0), infH); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/stellar_routines.h:197:20: required from ‘void _getStellarMatches(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet > >&, StellarOptions&, TMatches&) [with TSequence = seqan::String, seqan::Alloc<> >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 197 | stellar(swiftFinder, swiftPattern, stellarOptions.epsilon, stellarOptions.minLength, stellarOptions.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 198 | stellarOptions.disableThresh, stellarOptions.compactThresh, stellarOptions.numMatches, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 199 | stellarOptions.verbose, databaseIDs[i], true, stellarMatches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/msplazer_main.h:145:27: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 145 | _getStellarMatches(queries, databases, databaseIDs, stellarOptions, stellarMatches); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h: In instantiation of ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Alloc<> >; TValue = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TExpand = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Segment, Alloc<> >, InfixSegment>; TTargetSpec = Alloc<>; TValue = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_owner.h:146:16: required from ‘void seqan::appendValue(StringSet >&, const TString2&, Tag) [with TString = Segment, Alloc<> >, InfixSegment>; TString2 = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 146 | appendValue(me.strings, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = StringSet, Alloc<> >, InfixSegment>, Owner<> >; TValue = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar_extension.h:402:13: required from ‘void _fillMatrixBestEndsLeft(TMatrix&, seqan::String&, const seqan::Segment&, const seqan::Segment&, TSeed&, TSeed&, const TScore&) [with TMatrix = seqan::String >; TPossEnd = ExtensionEndPosition; TSequence = seqan::String, seqan::Alloc<> >; TSeed = seqan::Seed >; TScore = seqan::Score >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 402 | appendValue(str, infixH); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar_extension.h:703:26: required from ‘bool _bestExtension(const TInfix&, const TInfix&, TSeed&, TSeed&, TPos, TPos, const TScore&, TDir, TSize, TEps, TAlign&) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSeed = seqan::Seed >; TPos = long unsigned int; TDir = seqan::ExtensionDirection; TScore = seqan::Score >; TSize = int; TEps = double; TAlign = seqan::Align, seqan::Alloc<> >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 703 | _fillMatrixBestEndsLeft(matrixLeft, possibleEndsLeft, infH, infV, seed, seedOld, scoreMatrix); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar_extension.h:860:22: required from ‘bool _extendAndExtract(const seqan::Align, seqan::InfixSegment> >&, TScoreValue, const TScore&, const seqan::Segment::Type, seqan::InfixSegment>&, const seqan::Segment::Type, seqan::InfixSegment>&, seqan::ExtensionDirection, TSize, TEps, TAlign&) [with TScoreValue = int; TScore = seqan::Score >; TSequence = seqan::String, seqan::Alloc<> >; TSize = int; TEps = double; TAlign = seqan::Align, seqan::Alloc<> >, seqan::Tag >; typename seqan::Infix::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 860 | if (!_bestExtension(infixH, infixV, seed, seedOld, alignLen, alignErr, scoreMatrix, direction, minLength, eps, align)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:643:26: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 643 | if (!_extendAndExtract(*aliIt, scoreDropOff, scoreMatrix, infH, infV, direction, minLength, eps, align)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/stellar_routines.h:197:20: required from ‘void _getStellarMatches(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet > >&, StellarOptions&, TMatches&) [with TSequence = seqan::String, seqan::Alloc<> >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 197 | stellar(swiftFinder, swiftPattern, stellarOptions.epsilon, stellarOptions.minLength, stellarOptions.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 198 | stellarOptions.disableThresh, stellarOptions.compactThresh, stellarOptions.numMatches, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 199 | stellarOptions.verbose, databaseIDs[i], true, stellarMatches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/msplazer_main.h:145:27: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 145 | _getStellarMatches(queries, databases, databaseIDs, stellarOptions, stellarMatches); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1475:37: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1475 | typename Value::Type temp_copy(_value); //temp copy because resize could invalidate _value | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveBackwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1641:30: required from ‘void seqan::arrayMoveBackward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1641 | _arrayMoveBackwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1213:26: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = SimpleType*; TSource1 = SimpleType*; TSource2 = SimpleType*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1213 | arrayMoveBackward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1660:14: required from ‘void seqan::_arrayClearSpacePointer(TValue*, size_t, size_t, size_t, const True&) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1660 | arrayMove(array_begin + keep_from, array_begin + array_length, array_begin + move_to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1681:28: required from ‘void seqan::arrayClearSpace(TValue*, size_t, size_t, size_t) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1681 | _arrayClearSpacePointer(array_begin, array_length, keep_from, move_to, typename IsSimple::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:856:28: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String, seqan::Alloc<> >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 856 | arrayClearSpace(seq_array + start, old_length - start, removed_size, size); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: required from ‘typename seqan::Size >::Type seqan::_clearSpace(String&, TSize, TPosition, TPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long unsigned int; TPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1014 | return ClearSpaceStringBase_ >::_clearSpace_(me, size, pos_begin, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1367:67: required from ‘static void seqan::AppendString_::append_(TTarget&, TSource&) [with TTarget = seqan::String, seqan::Alloc<> >; TSource = const seqan::String, seqan::Alloc<> >; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1367 | typename Size::Type part_length = _clearSpace(target, length(source), target_length, target_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42: required from ‘void seqan::append(String&, const TSource&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = String, Alloc<> >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1421 | AppendString_ >::append_(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1608:11: required from ‘void seqan::append(TTarget&, TSource&) [with TTarget = String, Alloc<> >; TSource = String, Alloc<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1608 | append(target, source, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/gustaf_matepairs.h:177:15: required from ‘bool _importSequences(const seqan::CharString&, const seqan::CharString&, bool, seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet >&, seqan::String >&) [with TSequence = seqan::String, seqan::Alloc<> >; TId = seqan::String >; seqan::CharString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 177 | append(seq, seqL); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/msplazer_main.h:72:30: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 72 | if (!_importSequences(msplazerOptions.queryFile[0], msplazerOptions.queryFile[1], msplazerOptions.revCompl, queries, queryIDs, shortQueryIDs, readJoinPositions)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1621:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1621 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1481:31: required from ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Alloc<> >; TValue = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1481 | valueConstruct(begin(me, Standard()) + me_length, temp_copy); //??? this should be valueMoveConstruct /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Segment, Alloc<> >, InfixSegment>; TTargetSpec = Alloc<>; TValue = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_owner.h:146:16: required from ‘void seqan::appendValue(StringSet >&, const TString2&, Tag) [with TString = Segment, Alloc<> >, InfixSegment>; TString2 = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 146 | appendValue(me.strings, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar_extension.h:703:26: required from ‘bool _bestExtension(const TInfix&, const TInfix&, TSeed&, TSeed&, TPos, TPos, const TScore&, TDir, TSize, TEps, TAlign&) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSeed = seqan::Seed >; TPos = long unsigned int; TDir = seqan::ExtensionDirection; TScore = seqan::Score >; TSize = int; TEps = double; TAlign = seqan::Align, seqan::Alloc<> >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 703 | _fillMatrixBestEndsLeft(matrixLeft, possibleEndsLeft, infH, infV, seed, seedOld, scoreMatrix); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar_extension.h:860:22: required from ‘bool _extendAndExtract(const seqan::Align, seqan::InfixSegment> >&, TScoreValue, const TScore&, const seqan::Segment::Type, seqan::InfixSegment>&, const seqan::Segment::Type, seqan::InfixSegment>&, seqan::ExtensionDirection, TSize, TEps, TAlign&) [with TScoreValue = int; TScore = seqan::Score >; TSequence = seqan::String, seqan::Alloc<> >; TSize = int; TEps = double; TAlign = seqan::Align, seqan::Alloc<> >, seqan::Tag >; typename seqan::Infix::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 860 | if (!_bestExtension(infixH, infixV, seed, seedOld, alignLen, alignErr, scoreMatrix, direction, minLength, eps, align)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:643:26: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 643 | if (!_extendAndExtract(*aliIt, scoreDropOff, scoreMatrix, infH, infV, direction, minLength, eps, align)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/stellar_routines.h:197:20: required from ‘void _getStellarMatches(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet > >&, StellarOptions&, TMatches&) [with TSequence = seqan::String, seqan::Alloc<> >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 197 | stellar(swiftFinder, swiftPattern, stellarOptions.epsilon, stellarOptions.minLength, stellarOptions.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 198 | stellarOptions.disableThresh, stellarOptions.compactThresh, stellarOptions.numMatches, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 199 | stellarOptions.verbose, databaseIDs[i], true, stellarMatches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/msplazer_main.h:145:27: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 145 | _getStellarMatches(queries, databases, databaseIDs, stellarOptions, stellarMatches); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar_extension.h:703:26: required from ‘bool _bestExtension(const TInfix&, const TInfix&, TSeed&, TSeed&, TPos, TPos, const TScore&, TDir, TSize, TEps, TAlign&) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSeed = seqan::Seed >; TPos = long unsigned int; TDir = seqan::ExtensionDirection; TScore = seqan::Score >; TSize = int; TEps = double; TAlign = seqan::Align, seqan::Alloc<> >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 703 | _fillMatrixBestEndsLeft(matrixLeft, possibleEndsLeft, infH, infV, seed, seedOld, scoreMatrix); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar_extension.h:860:22: required from ‘bool _extendAndExtract(const seqan::Align, seqan::InfixSegment> >&, TScoreValue, const TScore&, const seqan::Segment::Type, seqan::InfixSegment>&, const seqan::Segment::Type, seqan::InfixSegment>&, seqan::ExtensionDirection, TSize, TEps, TAlign&) [with TScoreValue = int; TScore = seqan::Score >; TSequence = seqan::String, seqan::Alloc<> >; TSize = int; TEps = double; TAlign = seqan::Align, seqan::Alloc<> >, seqan::Tag >; typename seqan::Infix::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 860 | if (!_bestExtension(infixH, infixV, seed, seedOld, alignLen, alignErr, scoreMatrix, direction, minLength, eps, align)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:643:26: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 643 | if (!_extendAndExtract(*aliIt, scoreDropOff, scoreMatrix, infH, infV, direction, minLength, eps, align)) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/stellar_routines.h:197:20: required from ‘void _getStellarMatches(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet > >&, StellarOptions&, TMatches&) [with TSequence = seqan::String, seqan::Alloc<> >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 197 | stellar(swiftFinder, swiftPattern, stellarOptions.epsilon, stellarOptions.minLength, stellarOptions.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 198 | stellarOptions.disableThresh, stellarOptions.compactThresh, stellarOptions.numMatches, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 199 | stellarOptions.verbose, databaseIDs[i], true, stellarMatches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/msplazer_main.h:145:27: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 145 | _getStellarMatches(queries, databases, databaseIDs, stellarOptions, stellarMatches); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Triple; TSource = Triple]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:268:11: required from ‘void seqan::move(TTarget&, TSource&) [with TTarget = Triple; TSource = Triple]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 268 | assign(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1056:13: required from ‘void seqan::_arrayMoveForwardDefault(TSource1, TSource2, TTarget) [with TTarget = Triple*; TSource1 = Triple*; TSource2 = Triple*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1056 | move(*target_begin, *source_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1600:29: required from ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, False) [with TValue = Triple]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1600 | _arrayMoveForwardDefault(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = Triple]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1211:25: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = Triple*; TSource1 = Triple*; TSource2 = Triple*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1211 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1295:22: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1929:12: required from ‘void seqan::replace(TTarget&, TPositionBegin, TPositionEnd, const TSource&) [with TTarget = String, Alloc<> >; TPositionBegin = int; TPositionEnd = int; TSource = String, Alloc<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1929 | replace(target, pos_begin, pos_end, source, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:224:20: required from ‘void _splitAtXDrops(TAlign&, seqan::Score >&, TScoreValue1, TScoreValue2, seqan::String&) [with TAlign = seqan::Align, seqan::Alloc<> >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >; TScoreValue = int; TScoreValue1 = int; TScoreValue2 = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 224 | replace(queue, 0, 2, String()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:624:23: required from ‘void verifySwiftHit(const seqan::Segment&, const seqan::Segment&, TEpsilon, TSize, TDrop, TDelta, TSize1, TSize1&, TSize1, TId&, bool, QueryMatches >&, TTag) [with TInfix = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TEpsilon = double; TSize = int; TDelta = unsigned int; TDrop = double; TSize1 = unsigned int; TId = seqan::String >; TSource = seqan::String, seqan::Alloc<> >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 624 | _splitAtXDrops(localAlign, scoreMatrix, scoreDropOff, minScore, seedAlignments); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:716:17: required from ‘void stellar(seqan::Finder > >&, seqan::Pattern, TSpec>, seqan::Swift > >&, double, TSize, TDrop, TSize1, TSize1&, TSize1, TMode, TId&, bool, seqan::StringSet > >&, TTag) [with TText = seqan::String, seqan::Alloc<> >; TStringSetSpec = seqan::Dependent >; TIndexSpec = seqan::IndexQGram, seqan::Tag >; TSize = int; TDrop = double; TSize1 = unsigned int; TMode = bool; TSource = seqan::String, seqan::Alloc<> >; TId = seqan::String >; TTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 716 | verifySwiftHit(finderSegment, patternSegment, epsilon, minLength, xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | pattern.bucketParams[0].delta + pattern.bucketParams[0].overlap, disableThresh, compactThresh, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 | numMatches, databaseID, dbStrand, value(matches, pattern.curSeqNo), tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/stellar_routines.h:197:20: required from ‘void _getStellarMatches(seqan::StringSet >&, seqan::StringSet >&, seqan::StringSet > >&, StellarOptions&, TMatches&) [with TSequence = seqan::String, seqan::Alloc<> >; TMatches = seqan::StringSet, seqan::Alloc<> >, seqan::String > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 197 | stellar(swiftFinder, swiftPattern, stellarOptions.epsilon, stellarOptions.minLength, stellarOptions.xDrop, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 198 | stellarOptions.disableThresh, stellarOptions.compactThresh, stellarOptions.numMatches, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 199 | stellarOptions.verbose, databaseIDs[i], true, stellarMatches, AllLocal()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/msplazer_main.h:145:27: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 145 | _getStellarMatches(queries, databases, databaseIDs, stellarOptions, stellarMatches); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘constexpr seqan::Triple& seqan::Triple::operator=(const seqan::Triple&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:57: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_base.h:162:12: note: because ‘seqan::Triple’ has user-provided ‘seqan::Triple::Triple(const seqan::Triple&) [with T1 = long unsigned int; T2 = long unsigned int; T3 = int; TSpec = void]’ 162 | inline Triple(Triple const & _p) | ^~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ In function ‘seqan::allocate, seqan::Alloc >, seqan::ScoreAndID, unsigned long, seqan::AllocateStorage_>(seqan::String, seqan::Alloc >&, seqan::ScoreAndID*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, void, unsigned long>(seqan::String, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, seqan::Alloc, unsigned long>(seqan::String, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, seqan::Alloc, unsigned long>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, seqan::Alloc > >(seqan::String, seqan::Alloc >&, seqan::Size, seqan::Alloc > >::Type)seqan::Size, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop, std::less > >(seqan::PriorityType, std::less >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551584’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘seqan::pop, std::less > >(seqan::PriorityType, std::less >, seqan::PriorityHeap>&)void’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate, seqan::Alloc >, seqan::ScoreAndID, unsigned long, seqan::AllocateStorage_>(seqan::String, seqan::Alloc >&, seqan::ScoreAndID*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, void, unsigned long>(seqan::String, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, seqan::Alloc, unsigned long>(seqan::String, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, seqan::Alloc, unsigned long>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, seqan::Alloc > >(seqan::String, seqan::Alloc >&, seqan::Size, seqan::Alloc > >::Type)seqan::Size, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop, std::less > >(seqan::PriorityType, std::less >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::_getNextBestEndPosition(seqan::LocalAlignmentFinder&, int)seqan::LocalAlignmentFinder::TMatrixPosition’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_waterman_eggert_impl.h:673:8, inlined from ‘seqan::_localAlignmentNext, seqan::Alloc >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag, seqan::Segment, seqan::Alloc >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag, seqan::Score >, int>(seqan::LocalAlignmentFinder&, seqan::Gaps, seqan::Alloc >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >&, seqan::Gaps, seqan::Alloc >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >&, seqan::Score > const&, int, int, int, seqan::Tag const&)int’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:572:39, inlined from ‘seqan::nextLocalAlignment, seqan::Segment, seqan::Alloc >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag, seqan::Segment, seqan::Alloc >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >(seqan::Gaps, seqan::Alloc >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >&, seqan::Gaps, seqan::Alloc >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >&, seqan::LocalAlignmentEnumerator >, seqan::Tag >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_enumeration_banded.h:109:35, inlined from ‘seqan::nextLocalAlignment, seqan::Segment, seqan::Alloc >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >(seqan::Align, seqan::Alloc >, seqan::InfixSegment>, seqan::InfixSegment>, seqan::Tag >&, seqan::LocalAlignmentEnumerator >, seqan::Tag >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_enumeration_banded.h:121:30, inlined from ‘verifySwiftHit, seqan::Alloc >, seqan::InfixSegment>, double, int, unsigned int, double, unsigned int, seqan::String >, seqan::String, seqan::Alloc >, seqan::Tag >(seqan::Segment, seqan::Alloc >, seqan::InfixSegment>, seqan::InfixSegment> const&, seqan::Segment, seqan::Alloc >, seqan::InfixSegment>, seqan::InfixSegment> const&, double, int, double, unsigned int, unsigned int, unsigned int&, unsigned int, seqan::String >&, bool, QueryMatches, seqan::Alloc >, seqan::String > > >&, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:617:30, inlined from ‘stellar, seqan::Alloc >, seqan::Dependent >, seqan::IndexQGram, seqan::Tag >, int, double, unsigned int, bool, seqan::String, seqan::Alloc >, seqan::String >, seqan::Tag >(seqan::Finder, seqan::Alloc >, seqan::Swift > >&, seqan::Pattern, seqan::Alloc >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >&, double, int, double, unsigned int, unsigned int&, unsigned int, bool, seqan::String >&, bool, seqan::StringSet, seqan::Alloc >, seqan::String > > >, seqan::Owner > >&, seqan::Tag)void [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:716:17: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551584’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘stellar, seqan::Alloc >, seqan::Dependent >, seqan::IndexQGram, seqan::Tag >, int, double, unsigned int, bool, seqan::String, seqan::Alloc >, seqan::String >, seqan::Tag >(seqan::Finder, seqan::Alloc >, seqan::Swift > >&, seqan::Pattern, seqan::Alloc >, seqan::Dependent > >, seqan::IndexQGram, seqan::Tag > >, seqan::Swift > >&, double, int, double, unsigned int, unsigned int&, unsigned int, bool, seqan::String >&, bool, seqan::StringSet, seqan::Alloc >, seqan::String > > >, seqan::Owner > >&, seqan::Tag)void [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ [ 40%] Linking CXX executable ../../../bin/gustaf cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/gustaf && /usr/bin/cmake -E cmake_link_script CMakeFiles/gustaf.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/gustaf.dir/gustaf.cpp.o -o ../../../bin/gustaf -lrt -L/usr/lib64 -lz In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘obtainId’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_idmanager.h:205:9, inlined from ‘addVertex’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:534:33, inlined from ‘_createVertices’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_interface.h:709:65, inlined from ‘_copyGraph’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:191:50, inlined from ‘_copyGraph’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:213:12, inlined from ‘__ct ’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:110:14, inlined from ‘__ct_base ’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/msplazer.h:362:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551608’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘__ct_base ’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘obtainId’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_idmanager.h:205:9, inlined from ‘addVertex’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:534:33, inlined from ‘_createVertices’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_interface.h:709:65, inlined from ‘_copyGraph’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:192:24, inlined from ‘_copyGraph’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:213:12, inlined from ‘__ct ’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:110:14, inlined from ‘__ct_base ’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/msplazer.h:362:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551608’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘__ct_base ’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘_getNextBestEndPosition’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_waterman_eggert_impl.h:673:8, inlined from ‘_localAlignmentNext’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:572:39, inlined from ‘nextLocalAlignment’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_enumeration_banded.h:109:35, inlined from ‘nextLocalAlignment’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_enumeration_banded.h:121:30, inlined from ‘verifySwiftHit’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:617:30, inlined from ‘stellar.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf/../../../core/apps/stellar/stellar.h:716:17: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551584’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘stellar.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551584’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘pop’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘obtainId’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_idmanager.h:205:9, inlined from ‘addVertex’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:534:33, inlined from ‘_createVertices’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_interface.h:709:65, inlined from ‘_copyGraph.constprop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:191:50: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551608’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_copyGraph.constprop’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘obtainId’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_idmanager.h:205:9, inlined from ‘addVertex’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:534:33, inlined from ‘_createVertices’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_interface.h:709:65, inlined from ‘_copyGraph.constprop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:192:24: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551608’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_copyGraph.constprop’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 40%] Built target gustaf make -f extras/apps/insegt/CMakeFiles/insegt.dir/build.make extras/apps/insegt/CMakeFiles/insegt.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/insegt /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/insegt/CMakeFiles/insegt.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/insegt/CMakeFiles/insegt.dir/build.make extras/apps/insegt/CMakeFiles/insegt.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 41%] Building CXX object extras/apps/insegt/CMakeFiles/insegt.dir/insegt.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/insegt && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/insegt/CMakeFiles/insegt.dir/insegt.cpp.o -MF CMakeFiles/insegt.dir/insegt.cpp.o.d -o CMakeFiles/insegt.dir/insegt.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/insegt.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/insegt.cpp:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/insegt.cpp:1: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/insegt.cpp:16: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/insegt.cpp:17: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/insegt.cpp:21: /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/create_gff.h: In function ‘void seqan::createAnnoCountGFF(TFile&, TAnnoCountStore&, TAnnoNormStore&, FragmentStore&, TMap&)’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/create_gff.h:225:9: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 225 | if (getValue(itAnno).typeId != INVALID_ID) | ^~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/create_gff.h:228:17: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 228 | if (getValue(itAnno).contigId == INVALID_ID ) | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/insegt.cpp:23: /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/overlap_module.h: In function ‘bool seqan::ngsOverlapper(TOptions&)’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/overlap_module.h:901:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 901 | if (!readOutput.good()) | ^~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/overlap_module.h:903:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 903 | createReadCountGFF(readOutput, readAnnoStore, fragStore); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/overlap_module.h:908:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 908 | if (!annoOutput.good()) | ^~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/overlap_module.h:910:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 910 | createAnnoCountGFF(annoOutput, annoCountStore, annoNormStore, fragStore, mapO); | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/overlap_module.h:915:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 915 | if (!tupleOutput.good()) | ^~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/overlap_module.h:917:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 917 | createTupleCountGFF(tupleOutput, tupleCountStore, fragStore, options.thresholdCount, options.thresholdRPKM); | ^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/insegt.cpp: In function ‘int main(int, const char**)’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/insegt.cpp:188:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 188 | if (res != ArgumentParser::PARSE_OK) | ^~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/insegt.cpp:191:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 191 | if (options.maxTuple) | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:61: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_annotation.h: In instantiation of ‘seqan::Iter > seqan::nodeDown(const Iter >&) [with TFragmentStore = FragmentStore<>; TSpec = void]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/overlap_module.h:45:64: required from ‘void seqan::adjustParentEntries(FragmentStore&) [with TSpec = void; TConfig = FragmentStoreConfig]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/insegt.cpp:191:9: note: 45 | getAnnotation(it).contigId = getAnnotation(nodeDown(it)).contigId; // If no child exists: nothing happens /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/insegt.cpp:191:9: note: | ~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/overlap_module.h:865:21: required from ‘bool seqan::ngsOverlapper(TOptions&) [with TOptions = InsegtOptions]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/insegt.cpp:191:9: note: 865 | adjustParentEntries(fragStore); /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/insegt.cpp:191:9: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/insegt.cpp:197:15: required from here /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/insegt.cpp:191:9: note: 197 | ngsOverlapper(options); /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/insegt.cpp:191:9: note: | ~~~~~~~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_annotation.h:1281:54: warning: implicitly-declared ‘constexpr seqan::Iter, seqan::AnnotationTree<> >::Iter(const seqan::Iter, seqan::AnnotationTree<> >&)’ is deprecated [-Wdeprecated-copy] 1281 | Iter > tmp(it); | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_annotation.h:415:9: note: because ‘seqan::Iter, seqan::AnnotationTree<> >’ has user-provided ‘const seqan::Iter >& seqan::Iter >::operator=(const seqan::Iter >&) [with TFragmentStore = seqan::FragmentStore<>; TSpec = void]’ 415 | operator = (Iter const &_origin) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_annotation.h:1283:16: warning: implicitly-declared ‘constexpr seqan::Iter, seqan::AnnotationTree<> >::Iter(const seqan::Iter, seqan::AnnotationTree<> >&)’ is deprecated [-Wdeprecated-copy] 1283 | return tmp; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_annotation.h:415:9: note: because ‘seqan::Iter, seqan::AnnotationTree<> >’ has user-provided ‘const seqan::Iter >& seqan::Iter >::operator=(const seqan::Iter >&) [with TFragmentStore = seqan::FragmentStore<>; TSpec = void]’ 415 | operator = (Iter const &_origin) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:55: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h: In instantiation of ‘void seqan::findIntervals(const Graph&, const TPropertyMap&, TValue, String&) [with TSpec = Directed >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TValue = unsigned int; TCargo = unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_intervaltree.h:182:15: required from ‘void seqan::findIntervalsForInterval(String&, TIntervalTree&, TInterval&, const unsigned int&) [with TIntervalTree = IntervalTree; TInterval = Interval; TCargo = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_annotation.h:415:9: note: 182 | findIntervals(intervalTree.g, intervalTree.pm, interval.i1 + offsetInterval, result1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_annotation.h:415:9: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/overlap_module.h:82:27: required from ‘void seqan::getIdsForRead(TAnnoIds&, FragmentStore&, TIntervalTree&, TIntervals&, unsigned int) [with TAnnoIds = StringSet >, Owner<> >; TSpec = void; TConfig = FragmentStoreConfig; TIntervalTree = IntervalTree; TIntervals = String, Alloc<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_annotation.h:415:9: note: 82 | findIntervalsForInterval(value(itR), intervalTree, getValue(itI), offsetInterval); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_annotation.h:415:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/fusion.h:775:18: required from ‘void seqan::getResults_Fusion(TReadAnnoStore&, TAnnoCountStore&, TTupleCountStore&, TTupleCountStore_Fusion&, FragmentStore&, unsigned int, bool, unsigned int, unsigned int, bool) [with TReadAnnoStore = String >; TAnnoCountStore = String >; TTupleCountStore = String >; TTupleCountStore_Fusion = String >; TSpec = void; TConfig = FragmentStoreConfig]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_annotation.h:415:9: note: 775 | getIdsForRead(ids, fragStore, *intervalTree, getValue(it).intervals, offsetInterval); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_annotation.h:415:9: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/overlap_module.h:884:20: required from ‘bool seqan::ngsOverlapper(TOptions&) [with TOptions = InsegtOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_annotation.h:415:9: note: 884 | getResults_Fusion(readAnnoStore, annoCountStore, tupleCountStore, tupleCountStore_Fusion, fragStore, options.nTuple, options.exact_nTuple, options.offsetInterval, options.thresholdGaps, options.unknownO); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_annotation.h:415:9: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/insegt.cpp:197:15: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_annotation.h:415:9: note: 197 | ngsOverlapper(options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_annotation.h:415:9: note: | ~~~~~~~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:1827:26: warning: implicitly-declared ‘seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)’ is deprecated [-Wdeprecated-copy] 1827 | act_prop = property(pm,act_knot); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: because ‘seqan::IntervalTreeNode, seqan::StorePointsOnly>’ has user-provided ‘seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]’ 398 | IntervalTreeNode(IntervalTreeNode const & other): | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:1838:43: warning: implicitly-declared ‘seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)’ is deprecated [-Wdeprecated-copy] 1838 | next_prop = property(pm,targetVertex(it)); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: because ‘seqan::IntervalTreeNode, seqan::StorePointsOnly>’ has user-provided ‘seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]’ 398 | IntervalTreeNode(IntervalTreeNode const & other): | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:1859:51: warning: implicitly-declared ‘seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)’ is deprecated [-Wdeprecated-copy] 1859 | next_prop = property(pm,targetVertex(it)); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: because ‘seqan::IntervalTreeNode, seqan::StorePointsOnly>’ has user-provided ‘seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]’ 398 | IntervalTreeNode(IntervalTreeNode const & other): | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:81: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h: In instantiation of ‘seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps >, InfixSegment>, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1189:28: required from ‘typename seqan::Iterator >::Type seqan::iter(T&, TPos, Tag) [with T = Gaps >, InfixSegment>, AnchorGaps, Alloc<> > > >; TPos = long int; TTag = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 1189 | return begin(me, tag_) + pos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1169:16: required from ‘typename seqan::Iterator::Type>::Type seqan::iter(T&, TPos) [with T = Gaps >, InfixSegment>, AnchorGaps, Alloc<> > > >; TPos = long int; typename Iterator::Type>::Type = Iter >, InfixSegment>, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 1169 | return iter(me, pos, typename DefaultGetIteratorSpec::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_anchor.h:465:20: required from ‘void seqan::insertGaps(Gaps >&, TPosition, TCount) [with TSequence = Segment >, InfixSegment>; TGapAnchors = String, Alloc<> >; TPosition = long int; TCount = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 465 | TIter it = iter(gaps, clippedViewPos); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2801:19: required from ‘void seqan::convertPairWiseToGlobalAlignment(FragmentStore&, TContigGapsString&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigGapsString = StringSet, Alloc<> >, Owner > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 2801 | insertGaps(gaps, insPos - rBegin, blkLen); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:459:45: required from ‘void seqan::_readImpl(TStreamOrReader&, FragmentStore&, const TTag&, const FragStoreImportFlags&) [with TStreamOrReader = RecordReader, SinglePass >; TSpec = void; TConfig = FragmentStoreConfig; TTag = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 459 | convertPairWiseToGlobalAlignment(fragStore, contigAnchorGaps); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:474:18: required from ‘void seqan::read(TFile&, FragmentStore&, Sam, const FragStoreImportFlags&) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 474 | _readImpl(reader, fragStore, Sam(), importFlags); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:496:13: required from ‘void seqan::read(TFile&, FragmentStore&, Sam) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 496 | read(file, fragStore, Sam(), FragStoreImportFlags()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/overlap_module.h:838:6: required from ‘bool seqan::ngsOverlapper(TOptions&) [with TOptions = InsegtOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 838 | read(fileSAM, fragStore, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/insegt.cpp:197:15: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 197 | ngsOverlapper(options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:742:58: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 742 | Iter > > result = lhs; | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:744:12: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 744 | return result; | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/insegt.cpp:12: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:606:19: required from ‘typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, InfixSegment>, Tag >; TValue = Segment, Alloc<> >, InfixSegment>; typename Value::Type = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 606 | valueConstruct(ret, data); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:735:42: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Segment, Alloc<> >, InfixSegment>; TValue2 = const Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 735 | me.data_value = _holderAllocateObject(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:1018:15: required from ‘void seqan::assignValue(Holder >&, const TSource&) [with TValue = Segment, Alloc<> >, InfixSegment>; TSource = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1018 | create(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:153:20: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2738:18: required from ‘void seqan::convertPairWiseToGlobalAlignment(FragmentStore&, TContigGapsString&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigGapsString = StringSet, Alloc<> >, Owner > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 2738 | TContigGapsPW contigGapsPW(/*contigInfix, */gaps[(*it).id]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:459:45: required from ‘void seqan::_readImpl(TStreamOrReader&, FragmentStore&, const TTag&, const FragStoreImportFlags&) [with TStreamOrReader = RecordReader, SinglePass >; TSpec = void; TConfig = FragmentStoreConfig; TTag = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 459 | convertPairWiseToGlobalAlignment(fragStore, contigAnchorGaps); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:474:18: required from ‘void seqan::read(TFile&, FragmentStore&, Sam, const FragStoreImportFlags&) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 474 | _readImpl(reader, fragStore, Sam(), importFlags); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:496:13: required from ‘void seqan::read(TFile&, FragmentStore&, Sam) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 496 | read(file, fragStore, Sam(), FragStoreImportFlags()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/overlap_module.h:838:6: required from ‘bool seqan::ngsOverlapper(TOptions&) [with TOptions = InsegtOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 838 | read(fileSAM, fragStore, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/insegt.cpp:197:15: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 197 | ngsOverlapper(options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:93, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/insegt.cpp:13: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Segment >, seqan::InfixSegment>*; TParam = seqan::Segment >, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Segment >, InfixSegment>*; TParam = Segment >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:606:19: required from ‘typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder >, InfixSegment>, Tag >; TValue = Segment >, InfixSegment>; typename Value::Type = Segment >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 606 | valueConstruct(ret, data); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:735:42: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Segment >, InfixSegment>; TValue2 = const Segment >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 735 | me.data_value = _holderAllocateObject(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:1018:15: required from ‘void seqan::assignValue(Holder >&, const TSource&) [with TValue = Segment >, InfixSegment>; TSource = Segment >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1018 | create(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:153:20: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2739:15: required from ‘void seqan::convertPairWiseToGlobalAlignment(FragmentStore&, TContigGapsString&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigGapsString = StringSet, Alloc<> >, Owner > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2739 | TReadGaps readGaps(store.readSeqStore[(*it).readId], (*it).gaps); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:459:45: required from ‘void seqan::_readImpl(TStreamOrReader&, FragmentStore&, const TTag&, const FragStoreImportFlags&) [with TStreamOrReader = RecordReader, SinglePass >; TSpec = void; TConfig = FragmentStoreConfig; TTag = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 459 | convertPairWiseToGlobalAlignment(fragStore, contigAnchorGaps); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:474:18: required from ‘void seqan::read(TFile&, FragmentStore&, Sam, const FragStoreImportFlags&) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 474 | _readImpl(reader, fragStore, Sam(), importFlags); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:496:13: required from ‘void seqan::read(TFile&, FragmentStore&, Sam) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 496 | read(file, fragStore, Sam(), FragStoreImportFlags()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/overlap_module.h:838:6: required from ‘bool seqan::ngsOverlapper(TOptions&) [with TOptions = InsegtOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 838 | read(fileSAM, fragStore, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/insegt.cpp:197:15: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 197 | ngsOverlapper(options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:131:16: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = String >, GapAnchor, void>, Alloc<> >; TValue = ContigStoreElement >, GapAnchor, void>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:1117:14: required from ‘void seqan::_storeAppendContig(FragmentStore&, TId&, TName&) [with TSpec = void; TConfig = FragmentStoreConfig; TId = unsigned int; TName = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1117 | appendValue(fragStore.contigStore, TContigElement()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_gff.h:256:23: required from ‘void seqan::_storeOneAnnotation(TFragmentStore&, IOContextGff_&) [with TFragmentStore = FragmentStore<>; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 256 | _storeAppendContig(fragStore, ctx.annotation.contigId, ctx.contigName); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_gff.h:331:32: required from ‘void seqan::read(TFile&, FragmentStore&, Gff) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig; Gff = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 331 | _storeOneAnnotation(fragStore, ctx); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/overlap_module.h:861:10: required from ‘bool seqan::ngsOverlapper(TOptions&) [with TOptions = InsegtOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 861 | read(fileGFF, fragStore, Gff()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/insegt.cpp:197:15: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 197 | ngsOverlapper(options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1444:21: required from ‘void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1444 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1465:31: required from ‘void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1465 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:849:31: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 849 | arrayConstructMove(old_array, old_array + start, seq_array); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: required from ‘typename seqan::Size >::Type seqan::_clearSpace(String&, TSize, TPosition, TPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long unsigned int; TPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1014 | return ClearSpaceStringBase_ >::_clearSpace_(me, size, pos_begin, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1367:67: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:577:30: required from ‘void seqan::_readAlignments(TStreamOrReader&, BamIOContext&, FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, const TTag&, const FragStoreImportFlags&) [with TStreamOrReader = RecordReader, SinglePass >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > >, String > >; TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TTag = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 577 | _readOneAlignment(streamOrReader, bamIOContext, fragStore, contigAnchorGaps, matchMateInfos, contextSAM, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 578 | importFlags, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:452:24: required from ‘void seqan::_readImpl(TStreamOrReader&, FragmentStore&, const TTag&, const FragStoreImportFlags&) [with TStreamOrReader = RecordReader, SinglePass >; TSpec = void; TConfig = FragmentStoreConfig; TTag = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 452 | _readAlignments(streamOrReader, bamIOContext, fragStore, contigAnchorGaps, matchMateInfos, tag, importFlags); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:474:18: required from ‘void seqan::read(TFile&, FragmentStore&, Sam, const FragStoreImportFlags&) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 474 | _readImpl(reader, fragStore, Sam(), importFlags); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:496:13: required from ‘void seqan::read(TFile&, FragmentStore&, Sam) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 496 | read(file, fragStore, Sam(), FragStoreImportFlags()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/overlap_module.h:838:6: required from ‘bool seqan::ngsOverlapper(TOptions&) [with TOptions = InsegtOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 838 | read(fileSAM, fragStore, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/insegt.cpp:197:15: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 197 | ngsOverlapper(options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1589:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1589 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveBackwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1641:30: required from ‘void seqan::arrayMoveBackward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1641 | _arrayMoveBackwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1213:26: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = SimpleType*; TSource1 = SimpleType*; TSource2 = SimpleType*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1213 | arrayMoveBackward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1660:14: required from ‘void seqan::_arrayClearSpacePointer(TValue*, size_t, size_t, size_t, const True&) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1660 | arrayMove(array_begin + keep_from, array_begin + array_length, array_begin + move_to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1681:28: required from ‘void seqan::arrayClearSpace(TValue*, size_t, size_t, size_t) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1681 | _arrayClearSpacePointer(array_begin, array_length, keep_from, move_to, typename IsSimple::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:856:28: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 856 | arrayClearSpace(seq_array + start, old_length - start, removed_size, size); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:577:30: required from ‘void seqan::_readAlignments(TStreamOrReader&, BamIOContext&, FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, const TTag&, const FragStoreImportFlags&) [with TStreamOrReader = RecordReader, SinglePass >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > >, String > >; TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TTag = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 577 | _readOneAlignment(streamOrReader, bamIOContext, fragStore, contigAnchorGaps, matchMateInfos, contextSAM, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 578 | importFlags, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:452:24: required from ‘void seqan::_readImpl(TStreamOrReader&, FragmentStore&, const TTag&, const FragStoreImportFlags&) [with TStreamOrReader = RecordReader, SinglePass >; TSpec = void; TConfig = FragmentStoreConfig; TTag = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 452 | _readAlignments(streamOrReader, bamIOContext, fragStore, contigAnchorGaps, matchMateInfos, tag, importFlags); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:474:18: required from ‘void seqan::read(TFile&, FragmentStore&, Sam, const FragStoreImportFlags&) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 474 | _readImpl(reader, fragStore, Sam(), importFlags); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:496:13: required from ‘void seqan::read(TFile&, FragmentStore&, Sam) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 496 | read(file, fragStore, Sam(), FragStoreImportFlags()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/overlap_module.h:838:6: required from ‘bool seqan::ngsOverlapper(TOptions&) [with TOptions = InsegtOptions]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 838 | read(fileSAM, fragStore, Sam()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt/insegt.cpp:197:15: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 197 | ngsOverlapper(options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1621:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1621 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:56, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h: In function ‘unsigned int seqan::cigarToGapAnchorRead(const TCigarString&, TGaps&) [with TCigarString = String >; TGaps = Gaps >, InfixSegment>, AnchorGaps, Alloc<> > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:534:27: warning: this statement may fall through [-Wimplicit-fallthrough=] 534 | insertGaps(it, cigar[i].count); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:535:13: note: here 535 | case 'I': | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h: In function ‘unsigned int seqan::cigarToGapAnchorRead(const TCigarString&, TGaps&) [with TCigarString = String >; TGaps = Gaps, Alloc<> > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:534:27: warning: this statement may fall through [-Wimplicit-fallthrough=] 534 | insertGaps(it, cigar[i].count); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:535:13: note: here 535 | case 'I': | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h: In function ‘unsigned int seqan::cigarToGapAnchorContig(const TCigarString&, TGaps&) [with TCigarString = String >; TGaps = Gaps, Alloc<> > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:564:27: warning: this statement may fall through [-Wimplicit-fallthrough=] 564 | insertGaps(it, cigar[i].count); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/cigar.h:565:13: note: here 565 | case 'D': | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 41%] Linking CXX executable ../../../bin/insegt cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/insegt && /usr/bin/cmake -E cmake_link_script CMakeFiles/insegt.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/insegt.dir/insegt.cpp.o -o ../../../bin/insegt -lrt In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘obtainId’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_idmanager.h:205:9, inlined from ‘addVertex’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:534:33, inlined from ‘_createVertices’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_interface.h:709:65, inlined from ‘_copyGraph.constprop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:191:50: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551608’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_copyGraph.constprop’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 41%] Built target insegt make -f extras/apps/mason2/CMakeFiles/mason_sim.dir/build.make extras/apps/mason2/CMakeFiles/mason_sim.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2/CMakeFiles/mason_sim.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/mason2/CMakeFiles/mason_sim.dir/build.make extras/apps/mason2/CMakeFiles/mason_sim.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 43%] Building CXX object extras/apps/mason2/CMakeFiles/mason_sim.dir/external_split_merge.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/mason2/CMakeFiles/mason_sim.dir/external_split_merge.cpp.o -MF CMakeFiles/mason_sim.dir/external_split_merge.cpp.o.d -o CMakeFiles/mason_sim.dir/external_split_merge.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/external_split_merge.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/external_split_merge.h:52, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/external_split_merge.cpp:35: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/external_split_merge.h:49: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:48: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_stream.h:50, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:107: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/external_split_merge.h:50: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 43%] Building CXX object extras/apps/mason2/CMakeFiles/mason_sim.dir/genomic_variants.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/mason2/CMakeFiles/mason_sim.dir/genomic_variants.cpp.o -MF CMakeFiles/mason_sim.dir/genomic_variants.cpp.o.d -o CMakeFiles/mason_sim.dir/genomic_variants.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/genomic_variants.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:53, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/genomic_variants.h:49, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/genomic_variants.cpp:35: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:52: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/stream.h:86, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/score.h:42, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:45, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:62, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/methylation_levels.h:38, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/genomic_variants.h:52: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:45:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:54:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:63:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 63 | struct filterI3 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:401:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 401 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:507:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 507 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:78: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:42:48: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public ::std::binary_function < PageBucket, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:57:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:257:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 257 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:372:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 372 | struct insertBucket : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_set.h:373:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:404:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 404 | public::std::binary_function // functor for operator> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:744:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 744 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:760:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 760 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:80: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:854:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 854 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:902:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 902 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:970:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 970 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1039:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1039 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1073:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1073 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1121:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1121 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2093:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2093 | struct _qgramComp : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2112:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2112 | public ::std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:46:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 46 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:85:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 85 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:96: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:98:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 98 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:112:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 112 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:127:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:144:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:154:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:99: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:110:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 110 | public ::std::binary_function < SkewDCStream, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:143:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 143 | public ::std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:100: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:99:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 99 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:118:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:132:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 132 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:154:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:175:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 175 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:185:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 185 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:103: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:57:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:97:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 97 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:141:29: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:109: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:59:42: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:164:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, KasaiOriginal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:312:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 312 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:313:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 313 | LCP[isa - 1] = h; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:379:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 379 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:380:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 380 | LCP[i] = h | mark; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const StringSet&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:483:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 483 | for(TSize hMax = _min(getValueI2((TPair)dec), n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:484:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 484 | LCP[i] = h | mark; | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:113: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h:144:50: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:585:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 585 | public ::std::binary_function< Pair, Pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:128: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In function ‘void seqan::_storeWotdChildren(Index > >&, TSize, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:504:27: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 504 | } else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:506:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 506 | for (TDirSize d = index.sentinelBound - index.sentinelOcc; d != index.sentinelBound; ++d) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:136: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h:149:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 149 | struct RepeatLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:157: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h: In function ‘typename seqan::Iterator >::Type seqan::_upperBoundLcpe(TText&, TSA&, SearchTreeIterator, TQuery&, TDiff_, TDiff_)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1498:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1498 | for(; i && ordEqual(*t, convert(*q)); --i, ++t, ++q) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1501 | if (q == qEnd || t == tEnd || !ordGreater(*t, convert(*q))) { | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:55: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h: In instantiation of ‘void seqan::findIntervals(const Graph&, const TPropertyMap&, TValue, String&) [with TSpec = Directed >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TValue = int; TCargo = GenomicInterval]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:1886:15: required from ‘void seqan::findIntervals(const IntervalTree&, TValue, String&) [with TValue = int; TCargo = GenomicInterval]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1886 | findIntervals(it.g,it.pm,query,result); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/genomic_variants.cpp:644:18: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 644 | findIntervals(svIntervalTree, svPos, intervals); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:1827:26: warning: implicitly-declared ‘seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)’ is deprecated [-Wdeprecated-copy] 1827 | act_prop = property(pm,act_knot); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: because ‘seqan::IntervalTreeNode, seqan::StorePointsOnly>’ has user-provided ‘seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]’ 398 | IntervalTreeNode(IntervalTreeNode const & other): | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:1838:43: warning: implicitly-declared ‘seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)’ is deprecated [-Wdeprecated-copy] 1838 | next_prop = property(pm,targetVertex(it)); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: because ‘seqan::IntervalTreeNode, seqan::StorePointsOnly>’ has user-provided ‘seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]’ 398 | IntervalTreeNode(IntervalTreeNode const & other): | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:1859:51: warning: implicitly-declared ‘seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)’ is deprecated [-Wdeprecated-copy] 1859 | next_prop = property(pm,targetVertex(it)); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: because ‘seqan::IntervalTreeNode, seqan::StorePointsOnly>’ has user-provided ‘seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]’ 398 | IntervalTreeNode(IntervalTreeNode const & other): | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1444:21: required from ‘void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 1444 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1465:31: required from ‘void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 1465 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:849:31: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String, seqan::Alloc<> >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 849 | arrayConstructMove(old_array, old_array + start, seq_array); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: required from ‘typename seqan::Size >::Type seqan::_clearSpace(String&, TSize, TPosition, TPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long unsigned int; TPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 1014 | return ClearSpaceStringBase_ >::_clearSpace_(me, size, pos_begin, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1367:67: required from ‘static void seqan::AppendString_::append_(TTarget&, TSource&) [with TTarget = seqan::String, seqan::Alloc<> >; TSource = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 1367 | typename Size::Type part_length = _clearSpace(target, length(source), target_length, target_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42: required from ‘void seqan::append(String&, const TSource&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 1421 | AppendString_ >::append_(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1626:11: required from ‘void seqan::append(TTarget&, const TSource&) [with TTarget = String, Alloc<> >; TSource = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 1626 | append(target, source, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/genomic_variants.cpp:234:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 234 | append(seq, infix(contig, lastPos, snpRecord.pos)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1589:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1589 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1477:56: required from ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >; TValue = const seqan::SimpleType; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1477 | typename Size::Type new_length = reserve(me, me_length + 1, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TValue = SimpleType; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = String, Alloc<> >; TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/genomic_variants.cpp:246:28: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 246 | appendValue(seq, snpRecord.to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveBackwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1641:30: required from ‘void seqan::arrayMoveBackward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1641 | _arrayMoveBackwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1213:26: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = SimpleType*; TSource1 = SimpleType*; TSource2 = SimpleType*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1213 | arrayMoveBackward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1660:14: required from ‘void seqan::_arrayClearSpacePointer(TValue*, size_t, size_t, size_t, const True&) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1660 | arrayMove(array_begin + keep_from, array_begin + array_length, array_begin + move_to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1681:28: required from ‘void seqan::arrayClearSpace(TValue*, size_t, size_t, size_t) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1681 | _arrayClearSpacePointer(array_begin, array_length, keep_from, move_to, typename IsSimple::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:856:28: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String, seqan::Alloc<> >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 856 | arrayClearSpace(seq_array + start, old_length - start, removed_size, size); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: required from ‘typename seqan::Size >::Type seqan::_clearSpace(String&, TSize, TPosition, TPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long unsigned int; TPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1014 | return ClearSpaceStringBase_ >::_clearSpace_(me, size, pos_begin, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1367:67: required from ‘static void seqan::AppendString_::append_(TTarget&, TSource&) [with TTarget = seqan::String, seqan::Alloc<> >; TSource = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1367 | typename Size::Type part_length = _clearSpace(target, length(source), target_length, target_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42: required from ‘void seqan::append(String&, const TSource&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = Segment, Alloc<> >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1421 | AppendString_ >::append_(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1626:11: required from ‘void seqan::append(TTarget&, const TSource&) [with TTarget = String, Alloc<> >; TSource = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1626 | append(target, source, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/genomic_variants.cpp:234:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 234 | append(seq, infix(contig, lastPos, snpRecord.pos)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1621:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1621 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ [ 45%] Building CXX object extras/apps/mason2/CMakeFiles/mason_sim.dir/mason_options.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/mason2/CMakeFiles/mason_sim.dir/mason_options.cpp.o -MF CMakeFiles/mason_sim.dir/mason_options.cpp.o.d -o CMakeFiles/mason_sim.dir/mason_options.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_options.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_options.h:51, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_options.cpp:35: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:44: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ [ 45%] Building CXX object extras/apps/mason2/CMakeFiles/mason_sim.dir/methylation_levels.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/mason2/CMakeFiles/mason_sim.dir/methylation_levels.cpp.o -MF CMakeFiles/mason_sim.dir/methylation_levels.cpp.o.d -o CMakeFiles/mason_sim.dir/methylation_levels.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/methylation_levels.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/methylation_levels.h:38, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/methylation_levels.cpp:35: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:51, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:39: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:45:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:54:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:63:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 63 | struct filterI3 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:401:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 401 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:507:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 507 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:78: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:42:48: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public ::std::binary_function < PageBucket, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:57:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:257:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 257 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:372:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 372 | struct insertBucket : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:44: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_set.h:373:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:404:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 404 | public::std::binary_function // functor for operator> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:744:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 744 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:760:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 760 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:80: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:854:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 854 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:902:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 902 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:970:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 970 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1039:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1039 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1073:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1073 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1121:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1121 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2093:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2093 | struct _qgramComp : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2112:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2112 | public ::std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:46:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 46 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:85:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 85 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:96: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:98:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 98 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:112:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 112 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:127:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:144:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:154:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:99: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:110:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 110 | public ::std::binary_function < SkewDCStream, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:143:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 143 | public ::std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:100: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:99:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 99 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:118:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:132:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 132 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:154:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:175:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 175 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:185:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 185 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:103: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:57:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:97:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 97 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:141:29: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:109: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:59:42: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:164:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, KasaiOriginal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:312:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 312 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:313:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 313 | LCP[isa - 1] = h; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:379:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 379 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:380:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 380 | LCP[i] = h | mark; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const StringSet&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:483:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 483 | for(TSize hMax = _min(getValueI2((TPair)dec), n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:484:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 484 | LCP[i] = h | mark; | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:113: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h:144:50: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:585:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 585 | public ::std::binary_function< Pair, Pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:128: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In function ‘void seqan::_storeWotdChildren(Index > >&, TSize, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:504:27: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 504 | } else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:506:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 506 | for (TDirSize d = index.sentinelBound - index.sentinelOcc; d != index.sentinelBound; ++d) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:136: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h:149:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 149 | struct RepeatLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:157: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h: In function ‘typename seqan::Iterator >::Type seqan::_upperBoundLcpe(TText&, TSA&, SearchTreeIterator, TQuery&, TDiff_, TDiff_)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1498:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1498 | for(; i && ordEqual(*t, convert(*q)); --i, ++t, ++q) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1501 | if (q == qEnd || t == tEnd || !ordGreater(*t, convert(*q))) { | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate >, seqan::Alloc >, seqan::String >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Alloc >&, seqan::String >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, void, unsigned long>(seqan::String >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Alloc > >(seqan::String >, seqan::Alloc >&, seqan::Size >, seqan::Alloc > >::Type)seqan::Size >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize >, seqan::Alloc >, unsigned long>(seqan::String >, seqan::Alloc >&, unsigned long)seqan::Size >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack >, seqan::Alloc > >(seqan::String >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::HtmlToolDocPrinter_::_toHtml > >(seqan::String > const&) constseqan::String > [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/tool_doc.h:284:34: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551568’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::HtmlToolDocPrinter_::_toHtml > >(seqan::String > const&) constseqan::String > [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ [ 46%] Building CXX object extras/apps/mason2/CMakeFiles/mason_sim.dir/simulate_454.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/mason2/CMakeFiles/mason_sim.dir/simulate_454.cpp.o -MF CMakeFiles/mason_sim.dir/simulate_454.cpp.o.d -o CMakeFiles/mason_sim.dir/simulate_454.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/simulate_454.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/sequencing.h:42, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/simulate_454.cpp:35: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/stdexcept:39, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/sequencing.h:40: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:48: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_stream.h:50, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:107: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:62, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/methylation_levels.h:38, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/sequencing.h:49: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:45:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:54:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:63:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 63 | struct filterI3 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:401:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 401 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:507:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 507 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:78: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:42:48: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public ::std::binary_function < PageBucket, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:57:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:257:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 257 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:372:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 372 | struct insertBucket : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_set.h:373:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:404:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 404 | public::std::binary_function // functor for operator> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:744:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 744 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:760:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 760 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:80: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:854:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 854 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:902:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 902 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:970:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 970 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1039:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1039 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1073:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1073 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1121:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1121 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2093:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2093 | struct _qgramComp : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2112:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2112 | public ::std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:46:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 46 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:85:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 85 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:96: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:98:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 98 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:112:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 112 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:127:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:144:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:154:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:99: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:110:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 110 | public ::std::binary_function < SkewDCStream, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:143:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 143 | public ::std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:100: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:99:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 99 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:118:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:132:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 132 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:154:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:175:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 175 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:185:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 185 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:103: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:57:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:97:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 97 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:141:29: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:109: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:59:42: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:164:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, KasaiOriginal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:312:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 312 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:313:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 313 | LCP[isa - 1] = h; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:379:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 379 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:380:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 380 | LCP[i] = h | mark; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const StringSet&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:483:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 483 | for(TSize hMax = _min(getValueI2((TPair)dec), n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:484:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 484 | LCP[i] = h | mark; | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:113: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h:144:50: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:585:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 585 | public ::std::binary_function< Pair, Pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:128: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In function ‘void seqan::_storeWotdChildren(Index > >&, TSize, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:504:27: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 504 | } else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:506:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 506 | for (TDirSize d = index.sentinelBound - index.sentinelOcc; d != index.sentinelBound; ++d) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:136: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h:149:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 149 | struct RepeatLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:157: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h: In function ‘typename seqan::Iterator >::Type seqan::_upperBoundLcpe(TText&, TSA&, SearchTreeIterator, TQuery&, TDiff_, TDiff_)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1498:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1498 | for(; i && ordEqual(*t, convert(*q)); --i, ++t, ++q) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1501 | if (q == qEnd || t == tEnd || !ordGreater(*t, convert(*q))) { | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:44: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1477:56: required from ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >; TValue = const seqan::SimpleType; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1477 | typename Size::Type new_length = reserve(me, me_length + 1, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TValue = SimpleType; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = String, Alloc<> >; TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/simulate_454.cpp:372:24: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 372 | appendValue(seq, seqan::Dna(i % 4)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, seqan::Alloc >, seqan::CigarElement, unsigned long, seqan::AllocateStorage_>(seqan::String, seqan::Alloc >&, seqan::CigarElement*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, void, unsigned long>(seqan::String, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, seqan::Alloc, unsigned long>(seqan::String, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, seqan::Alloc, unsigned long>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, seqan::Alloc > >(seqan::String, seqan::Alloc >&, seqan::Size, seqan::Alloc > >::Type)seqan::Size, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, seqan::Alloc >, unsigned long>(seqan::String, seqan::Alloc >&, unsigned long)seqan::Size, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, seqan::Alloc > >(seqan::String, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘appendOperation(seqan::String, seqan::Alloc >&, char)’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/sequencing.h:365:22: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551600’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/stdexcept:38: /usr/include/c++/14/new: In function ‘appendOperation(seqan::String, seqan::Alloc >&, char)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 46%] Building CXX object extras/apps/mason2/CMakeFiles/mason_sim.dir/simulate_base.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/mason2/CMakeFiles/mason_sim.dir/simulate_base.cpp.o -MF CMakeFiles/mason_sim.dir/simulate_base.cpp.o.d -o CMakeFiles/mason_sim.dir/simulate_base.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/simulate_base.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/sequencing.h:42, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/simulate_base.cpp:35: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/stdexcept:39, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/sequencing.h:40: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:48: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_stream.h:50, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:107: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:62, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/methylation_levels.h:38, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/sequencing.h:49: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:45:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:54:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:63:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 63 | struct filterI3 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:401:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 401 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:507:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 507 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:78: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:42:48: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public ::std::binary_function < PageBucket, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:57:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:257:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 257 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:372:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 372 | struct insertBucket : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_set.h:373:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:404:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 404 | public::std::binary_function // functor for operator> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:744:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 744 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:760:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 760 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:80: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:854:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 854 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:902:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 902 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:970:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 970 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1039:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1039 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1073:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1073 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1121:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1121 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2093:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2093 | struct _qgramComp : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2112:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2112 | public ::std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:46:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 46 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:85:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 85 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:96: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:98:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 98 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:112:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 112 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:127:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:144:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:154:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:99: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:110:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 110 | public ::std::binary_function < SkewDCStream, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:143:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 143 | public ::std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:100: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:99:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 99 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:118:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:132:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 132 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:154:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:175:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 175 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:185:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 185 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:103: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:57:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:97:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 97 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:141:29: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:109: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:59:42: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:164:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, KasaiOriginal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:312:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 312 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:313:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 313 | LCP[isa - 1] = h; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:379:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 379 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:380:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 380 | LCP[i] = h | mark; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const StringSet&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:483:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 483 | for(TSize hMax = _min(getValueI2((TPair)dec), n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:484:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 484 | LCP[i] = h | mark; | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:113: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h:144:50: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:585:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 585 | public ::std::binary_function< Pair, Pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:128: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In function ‘void seqan::_storeWotdChildren(Index > >&, TSize, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:504:27: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 504 | } else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:506:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 506 | for (TDirSize d = index.sentinelBound - index.sentinelOcc; d != index.sentinelBound; ++d) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:136: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h:149:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 149 | struct RepeatLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:157: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h: In function ‘typename seqan::Iterator >::Type seqan::_upperBoundLcpe(TText&, TSA&, SearchTreeIterator, TQuery&, TDiff_, TDiff_)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1498:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1498 | for(; i && ordEqual(*t, convert(*q)); --i, ++t, ++q) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1501 | if (q == qEnd || t == tEnd || !ordGreater(*t, convert(*q))) { | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 48%] Building CXX object extras/apps/mason2/CMakeFiles/mason_sim.dir/simulate_genome.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/mason2/CMakeFiles/mason_sim.dir/simulate_genome.cpp.o -MF CMakeFiles/mason_sim.dir/simulate_genome.cpp.o.d -o CMakeFiles/mason_sim.dir/simulate_genome.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/simulate_genome.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/stream.h:86, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/simulate_genome.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/simulate_genome.cpp:35: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/sstream:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/simulate_genome.h:42: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/fai_index.h:40, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:83: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:51, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/simulate_genome.h:44: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1477:56: required from ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >; TValue = const char; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1477 | typename Size::Type new_length = reserve(me, me_length + 1, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TValue = char; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = String, Alloc<> >; TValue = char]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/simulate_genome.cpp:69:28: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 69 | appendValue(contig, 'A'); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:64: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h: In member function ‘void seqan::SequenceStreamImpl_::_guessFileTypeAndFormatForReadingAndInitialize()’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:310:25: warning: this statement may fall through [-Wimplicit-fallthrough=] 310 | _fileFormat = this->_checkFormat(*_istreamReader); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:313:9: note: here 313 | case SeqIOFileType_::FILE_TYPE_AUTO: | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 48%] Building CXX object extras/apps/mason2/CMakeFiles/mason_sim.dir/simulate_illumina.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/mason2/CMakeFiles/mason_sim.dir/simulate_illumina.cpp.o -MF CMakeFiles/mason_sim.dir/simulate_illumina.cpp.o.d -o CMakeFiles/mason_sim.dir/simulate_illumina.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/simulate_illumina.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/sequencing.h:42, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/simulate_illumina.cpp:35: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/stdexcept:39, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/sequencing.h:40: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:48: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_stream.h:50, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:107: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:62, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/methylation_levels.h:38, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/sequencing.h:49: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:45:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:54:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:63:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 63 | struct filterI3 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:401:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 401 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:507:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 507 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:78: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:42:48: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public ::std::binary_function < PageBucket, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:57:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:257:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 257 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:372:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 372 | struct insertBucket : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_set.h:373:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:404:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 404 | public::std::binary_function // functor for operator> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:744:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 744 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:760:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 760 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:80: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:854:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 854 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:902:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 902 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:970:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 970 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1039:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1039 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1073:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1073 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1121:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1121 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2093:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2093 | struct _qgramComp : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2112:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2112 | public ::std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:46:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 46 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:85:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 85 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:96: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:98:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 98 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:112:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 112 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:127:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:144:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:154:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:99: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:110:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 110 | public ::std::binary_function < SkewDCStream, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:143:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 143 | public ::std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:100: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:99:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 99 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:118:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:132:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 132 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:154:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:175:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 175 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:185:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 185 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:103: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:57:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:97:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 97 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:141:29: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:109: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:59:42: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:164:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, KasaiOriginal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:312:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 312 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:313:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 313 | LCP[isa - 1] = h; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:379:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 379 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:380:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 380 | LCP[i] = h | mark; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const StringSet&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:483:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 483 | for(TSize hMax = _min(getValueI2((TPair)dec), n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:484:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 484 | LCP[i] = h | mark; | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:113: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h:144:50: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:585:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 585 | public ::std::binary_function< Pair, Pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:128: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In function ‘void seqan::_storeWotdChildren(Index > >&, TSize, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:504:27: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 504 | } else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:506:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 506 | for (TDirSize d = index.sentinelBound - index.sentinelOcc; d != index.sentinelBound; ++d) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:136: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h:149:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 149 | struct RepeatLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:157: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h: In function ‘typename seqan::Iterator >::Type seqan::_upperBoundLcpe(TText&, TSA&, SearchTreeIterator, TQuery&, TDiff_, TDiff_)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1498:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1498 | for(; i && ordEqual(*t, convert(*q)); --i, ++t, ++q) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1501 | if (q == qEnd || t == tEnd || !ordGreater(*t, convert(*q))) { | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h: In instantiation of ‘seqan::ModifiedString::ModifiedString(THost_&&, typename seqan::EnableIf::Type, typename seqan::RemoveReference::Type> >::Type*) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; THost = seqan::ModifiedString, seqan::Alloc<> >, seqan::InfixSegment>, seqan::ModView > > >; TSpec = seqan::Tag; typename seqan::EnableIf::Type, typename seqan::RemoveReference::Type> >::Type = void; typename seqan::RemoveReference::Type = seqan::ModifiedString, seqan::Alloc<> >, seqan::InfixSegment>, seqan::ModView > > >; typename seqan::RemoveReference::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/simulate_illumina.cpp:259:72: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 259 | _simulateSequence(seq, rng, TRevCompFrag(prefix(frag, lenInRef)), cigar); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:161:13: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 161 | _host(std::forward(host)) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:93, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:69: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:165:53: note: initializing argument 1 of ‘seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TFunctor = seqan::FunctorComplement >; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 165 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_iterator.h:65, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:86, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:44: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:111:7: required from ‘void {anonymous}::_simulateSequence(TRead&, TRng&, const TFrag&, const TCigarString&) [with TFrag = seqan::ModifiedString, seqan::Alloc<> >, seqan::InfixSegment>, seqan::ModView > > >, seqan::Tag >; TRead = seqan::String, seqan::Alloc<> >; TRng = seqan::Rng; TCigarString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:165:53: note: 111 | class ModifiedIterator > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:165:53: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/simulate_illumina.cpp:259:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:165:53: note: 259 | _simulateSequence(seq, rng, TRevCompFrag(prefix(frag, lenInRef)), cigar); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:165:53: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:147:15: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 147 | : data_container(other_.data_container), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:92: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:166:25: required from ‘seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TFunctor = seqan::FunctorComplement >; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 166 | _host(_toPointer(host)), tmp_value() /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:161:13: required from ‘seqan::ModifiedString::ModifiedString(THost_&&, typename seqan::EnableIf::Type, typename seqan::RemoveReference::Type> >::Type*) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; THost = seqan::ModifiedString, seqan::Alloc<> >, seqan::InfixSegment>, seqan::ModView > > >; TSpec = seqan::Tag; typename seqan::EnableIf::Type, typename seqan::RemoveReference::Type> >::Type = void; typename seqan::RemoveReference::Type = seqan::ModifiedString, seqan::Alloc<> >, seqan::InfixSegment>, seqan::ModView > > >; typename seqan::RemoveReference::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 161 | _host(std::forward(host)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/simulate_illumina.cpp:259:72: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 259 | _simulateSequence(seq, rng, TRevCompFrag(prefix(frag, lenInRef)), cigar); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_endDefault(T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:841:23: required from ‘typename seqan::Iterator >::Type seqan::end(T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 841 | return _endDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:670:20: required from ‘typename seqan::Iterator, const seqan::Tag >::Type seqan::end(ModifiedString&, Tag) [with THost = Segment, Alloc<> >, InfixSegment>; TSpec = ModView > >; TTagSpec = Rooted_; typename Iterator, const Tag >::Type = ModifiedIterator, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >, ModView > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 670 | TResult tmp(end(host(me), tag_)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_reverse.h:452:102: required from ‘typename seqan::Iterator >, const seqan::Tag >::Type seqan::begin(const ModifiedString >&, Tag) [with THost = ModifiedString, Alloc<> >, InfixSegment>, ModView > > >; TTagSpec = Standard_; typename Iterator >, const Tag >::Type = ModifiedIterator, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >, ModView > > >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 452 | typename Iterator< ModifiedString const, Tag const >::Type temp_(end(host(me), Rooted())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/simulate_illumina.cpp:193:25: required from ‘void {anonymous}::_simulateSequence(TRead&, TRng&, const TFrag&, const TCigarString&) [with TFrag = seqan::ModifiedString, seqan::Alloc<> >, seqan::InfixSegment>, seqan::ModView > > >, seqan::Tag >; TRead = seqan::String, seqan::Alloc<> >; TRng = seqan::Rng; TCigarString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 193 | TFragIter it = begin(frag, seqan::Standard()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/simulate_illumina.cpp:259:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 259 | _simulateSequence(seq, rng, TRevCompFrag(prefix(frag, lenInRef)), cigar); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:768:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 768 | return TIterator(me, end(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1477:56: required from ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >; TValue = const seqan::SimpleType; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1477 | typename Size::Type new_length = reserve(me, me_length + 1, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TValue = SimpleType; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = String, Alloc<> >; TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/simulate_illumina.cpp:201:28: required from ‘void {anonymous}::_simulateSequence(TRead&, TRng&, const TFrag&, const TCigarString&) [with TFrag = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TRead = seqan::String, seqan::Alloc<> >; TRng = seqan::Rng; TCigarString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 201 | appendValue(read, *it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/simulate_illumina.cpp:257:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 257 | _simulateSequence(seq, rng, prefix(frag, lenInRef), cigar); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, seqan::Alloc >, seqan::CigarElement, unsigned long, seqan::AllocateStorage_>(seqan::String, seqan::Alloc >&, seqan::CigarElement*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, void, unsigned long>(seqan::String, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, seqan::Alloc, unsigned long>(seqan::String, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, seqan::Alloc, unsigned long>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, seqan::Alloc > >(seqan::String, seqan::Alloc >&, seqan::Size, seqan::Alloc > >::Type)seqan::Size, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, seqan::Alloc >, unsigned long>(seqan::String, seqan::Alloc >&, unsigned long)seqan::Size, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, seqan::Alloc > >(seqan::String, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘appendOperation(seqan::String, seqan::Alloc >&, char)’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/sequencing.h:365:22: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551600’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/stdexcept:38: /usr/include/c++/14/new: In function ‘appendOperation(seqan::String, seqan::Alloc >&, char)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 48%] Building CXX object extras/apps/mason2/CMakeFiles/mason_sim.dir/simulate_sanger.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/mason2/CMakeFiles/mason_sim.dir/simulate_sanger.cpp.o -MF CMakeFiles/mason_sim.dir/simulate_sanger.cpp.o.d -o CMakeFiles/mason_sim.dir/simulate_sanger.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/simulate_sanger.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/sequencing.h:42, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/simulate_sanger.cpp:35: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/stdexcept:39, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/sequencing.h:40: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:48: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_stream.h:50, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:107: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:62, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/methylation_levels.h:38, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/sequencing.h:49: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:45:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:54:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:63:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 63 | struct filterI3 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:401:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 401 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:507:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 507 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:78: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:42:48: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public ::std::binary_function < PageBucket, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:57:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:257:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 257 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:372:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 372 | struct insertBucket : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_set.h:373:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:404:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 404 | public::std::binary_function // functor for operator> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:744:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 744 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:760:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 760 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:80: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:854:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 854 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:902:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 902 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:970:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 970 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1039:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1039 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1073:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1073 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1121:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1121 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2093:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2093 | struct _qgramComp : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2112:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2112 | public ::std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:46:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 46 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:85:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 85 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:96: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:98:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 98 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:112:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 112 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:127:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:144:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:154:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:99: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:110:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 110 | public ::std::binary_function < SkewDCStream, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:143:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 143 | public ::std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:100: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:99:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 99 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:118:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:132:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 132 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:154:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:175:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 175 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:185:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 185 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:103: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:57:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:97:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 97 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:141:29: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:109: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:59:42: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:164:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, KasaiOriginal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:312:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 312 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:313:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 313 | LCP[isa - 1] = h; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:379:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 379 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:380:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 380 | LCP[i] = h | mark; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const StringSet&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:483:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 483 | for(TSize hMax = _min(getValueI2((TPair)dec), n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:484:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 484 | LCP[i] = h | mark; | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:113: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h:144:50: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:585:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 585 | public ::std::binary_function< Pair, Pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:128: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In function ‘void seqan::_storeWotdChildren(Index > >&, TSize, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:504:27: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 504 | } else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:506:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 506 | for (TDirSize d = index.sentinelBound - index.sentinelOcc; d != index.sentinelBound; ++d) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:136: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h:149:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 149 | struct RepeatLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:157: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h: In function ‘typename seqan::Iterator >::Type seqan::_upperBoundLcpe(TText&, TSA&, SearchTreeIterator, TQuery&, TDiff_, TDiff_)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1498:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1498 | for(; i && ordEqual(*t, convert(*q)); --i, ++t, ++q) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1501 | if (q == qEnd || t == tEnd || !ordGreater(*t, convert(*q))) { | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h: In instantiation of ‘seqan::ModifiedString::ModifiedString(THost_&&, typename seqan::EnableIf::Type, typename seqan::RemoveReference::Type> >::Type*) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; THost = seqan::ModifiedString, seqan::Alloc<> >, seqan::InfixSegment>, seqan::ModView > > >; TSpec = seqan::Tag; typename seqan::EnableIf::Type, typename seqan::RemoveReference::Type> >::Type = void; typename seqan::RemoveReference::Type = seqan::ModifiedString, seqan::Alloc<> >, seqan::InfixSegment>, seqan::ModView > > >; typename seqan::RemoveReference::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/simulate_sanger.cpp:146:76: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 146 | _simulateSequence(seq, rng, TRevCompFrag(prefix(frag, sampleLength)), cigar); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:161:13: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 161 | _host(std::forward(host)) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:93, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:69: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:165:53: note: initializing argument 1 of ‘seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TFunctor = seqan::FunctorComplement >; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 165 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_iterator.h:65, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:86, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:44: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:111:7: required from ‘void {anonymous}::_simulateSequence(TRead&, TRng&, const TFrag&, const TCigarString&) [with TFrag = seqan::ModifiedString, seqan::Alloc<> >, seqan::InfixSegment>, seqan::ModView > > >, seqan::Tag >; TRead = seqan::String, seqan::Alloc<> >; TRng = seqan::Rng; TCigarString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:165:53: note: 111 | class ModifiedIterator > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:165:53: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/simulate_sanger.cpp:146:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:165:53: note: 146 | _simulateSequence(seq, rng, TRevCompFrag(prefix(frag, sampleLength)), cigar); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:165:53: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:147:15: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 147 | : data_container(other_.data_container), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:92: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_view.h:166:25: required from ‘seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TFunctor = seqan::FunctorComplement >; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 166 | _host(_toPointer(host)), tmp_value() /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:161:13: required from ‘seqan::ModifiedString::ModifiedString(THost_&&, typename seqan::EnableIf::Type, typename seqan::RemoveReference::Type> >::Type*) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; THost = seqan::ModifiedString, seqan::Alloc<> >, seqan::InfixSegment>, seqan::ModView > > >; TSpec = seqan::Tag; typename seqan::EnableIf::Type, typename seqan::RemoveReference::Type> >::Type = void; typename seqan::RemoveReference::Type = seqan::ModifiedString, seqan::Alloc<> >, seqan::InfixSegment>, seqan::ModView > > >; typename seqan::RemoveReference::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 161 | _host(std::forward(host)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/simulate_sanger.cpp:146:76: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 146 | _simulateSequence(seq, rng, TRevCompFrag(prefix(frag, sampleLength)), cigar); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_endDefault(T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:841:23: required from ‘typename seqan::Iterator >::Type seqan::end(T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 841 | return _endDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:670:20: required from ‘typename seqan::Iterator, const seqan::Tag >::Type seqan::end(ModifiedString&, Tag) [with THost = Segment, Alloc<> >, InfixSegment>; TSpec = ModView > >; TTagSpec = Rooted_; typename Iterator, const Tag >::Type = ModifiedIterator, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >, ModView > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 670 | TResult tmp(end(host(me), tag_)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_reverse.h:452:102: required from ‘typename seqan::Iterator >, const seqan::Tag >::Type seqan::begin(const ModifiedString >&, Tag) [with THost = ModifiedString, Alloc<> >, InfixSegment>, ModView > > >; TTagSpec = Standard_; typename Iterator >, const Tag >::Type = ModifiedIterator, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >, ModView > > >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 452 | typename Iterator< ModifiedString const, Tag const >::Type temp_(end(host(me), Rooted())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/simulate_sanger.cpp:59:25: required from ‘void {anonymous}::_simulateSequence(TRead&, TRng&, const TFrag&, const TCigarString&) [with TFrag = seqan::ModifiedString, seqan::Alloc<> >, seqan::InfixSegment>, seqan::ModView > > >, seqan::Tag >; TRead = seqan::String, seqan::Alloc<> >; TRng = seqan::Rng; TCigarString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 59 | TFragIter it = begin(frag, seqan::Standard()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/simulate_sanger.cpp:146:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 146 | _simulateSequence(seq, rng, TRevCompFrag(prefix(frag, sampleLength)), cigar); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:768:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 768 | return TIterator(me, end(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1477:56: required from ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >; TValue = const seqan::SimpleType; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1477 | typename Size::Type new_length = reserve(me, me_length + 1, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TValue = SimpleType; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = String, Alloc<> >; TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/simulate_sanger.cpp:67:28: required from ‘void {anonymous}::_simulateSequence(TRead&, TRng&, const TFrag&, const TCigarString&) [with TFrag = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TRead = seqan::String, seqan::Alloc<> >; TRng = seqan::Rng; TCigarString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 67 | appendValue(read, *it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/simulate_sanger.cpp:144:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 144 | _simulateSequence(seq, rng, prefix(frag, sampleLength), cigar); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, seqan::Alloc >, seqan::CigarElement, unsigned long, seqan::AllocateStorage_>(seqan::String, seqan::Alloc >&, seqan::CigarElement*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, void, unsigned long>(seqan::String, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, seqan::Alloc, unsigned long>(seqan::String, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, seqan::Alloc, unsigned long>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, seqan::Alloc > >(seqan::String, seqan::Alloc >&, seqan::Size, seqan::Alloc > >::Type)seqan::Size, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, seqan::Alloc >, unsigned long>(seqan::String, seqan::Alloc >&, unsigned long)seqan::Size, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, seqan::Alloc > >(seqan::String, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘appendOperation(seqan::String, seqan::Alloc >&, char)’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/sequencing.h:365:22: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551600’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/stdexcept:38: /usr/include/c++/14/new: In function ‘appendOperation(seqan::String, seqan::Alloc >&, char)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 50%] Building CXX object extras/apps/mason2/CMakeFiles/mason_sim.dir/vcf_materialization.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/mason2/CMakeFiles/mason_sim.dir/vcf_materialization.cpp.o -MF CMakeFiles/mason_sim.dir/vcf_materialization.cpp.o.d -o CMakeFiles/mason_sim.dir/vcf_materialization.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/vcf_materialization.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/stream.h:86, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/vcf_materialization.h:41, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/vcf_materialization.cpp:35: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/stdexcept:39, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/vcf_materialization.h:38: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/fai_index.h:40, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:83: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/vcf_materialization.h:42: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h: In function ‘int seqan::writeRecord(TStream&, const VcfRecord&, const VcfIOContext&, const Vcf&)’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:190:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 190 | else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:192:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 192 | streamWriteChar(stream, '\t'); | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:62, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/methylation_levels.h:38, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/genomic_variants.h:52, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/vcf_materialization.h:44: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:45:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:54:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:63:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 63 | struct filterI3 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:401:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 401 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:507:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 507 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:78: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:42:48: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public ::std::binary_function < PageBucket, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:57:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:257:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 257 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:372:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 372 | struct insertBucket : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_set.h:373:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:404:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 404 | public::std::binary_function // functor for operator> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:744:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 744 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:760:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 760 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:80: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:854:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 854 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:902:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 902 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:970:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 970 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1039:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1039 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1073:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1073 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1121:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1121 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2093:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2093 | struct _qgramComp : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2112:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2112 | public ::std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:46:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 46 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:85:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 85 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:96: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:98:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 98 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:112:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 112 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:127:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:144:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:154:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:99: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:110:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 110 | public ::std::binary_function < SkewDCStream, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:143:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 143 | public ::std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:100: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:99:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 99 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:118:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:132:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 132 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:154:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:175:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 175 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:185:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 185 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:103: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:57:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:97:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 97 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:141:29: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:109: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:59:42: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:164:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, KasaiOriginal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:312:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 312 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:313:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 313 | LCP[isa - 1] = h; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:379:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 379 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:380:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 380 | LCP[i] = h | mark; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const StringSet&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:483:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 483 | for(TSize hMax = _min(getValueI2((TPair)dec), n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:484:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 484 | LCP[i] = h | mark; | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:113: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h:144:50: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:585:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 585 | public ::std::binary_function< Pair, Pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:128: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In function ‘void seqan::_storeWotdChildren(Index > >&, TSize, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:504:27: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 504 | } else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:506:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 506 | for (TDirSize d = index.sentinelBound - index.sentinelOcc; d != index.sentinelBound; ++d) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:136: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h:149:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 149 | struct RepeatLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:157: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h: In function ‘typename seqan::Iterator >::Type seqan::_upperBoundLcpe(TText&, TSA&, SearchTreeIterator, TQuery&, TDiff_, TDiff_)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1498:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1498 | for(; i && ordEqual(*t, convert(*q)); --i, ++t, ++q) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1501 | if (q == qEnd || t == tEnd || !ordGreater(*t, convert(*q))) { | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:51, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/vcf_materialization.h:40: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1925:45: required from ‘static typename seqan::Size::Type seqan::_Resize_String::resize_(T&, typename seqan::Size::Type, const TValue&) [with T = seqan::String, seqan::Alloc<> >; TValue = seqan::SimpleType; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1925 | TSize new_capacity = reserve(me, new_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1964:50: required from ‘typename seqan::Size >::Type seqan::resize(String&, TSize, const TValue2&, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = unsigned int; TValue2 = SimpleType; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1964 | return _Resize_String >::resize_(me, new_length, val); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2153:18: required from ‘typename seqan::Size::Type seqan::resize(T&, TSize, const TValue&) [with T = String, Alloc<> >; TSize = unsigned int; TValue = SimpleType; typename Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 2153 | return resize(me, new_length, val, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/fai_index.h:426:11: required from ‘int seqan::readRegion(String&, const FaiIndex&, unsigned int, unsigned int, unsigned int) [with TValue = SimpleType; TSpec = Alloc<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 426 | resize(str, toRead, TValue()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/fai_index.h:505:22: required from ‘int seqan::readSequence(String&, const FaiIndex&, unsigned int) [with TValue = SimpleType; TSpec = Alloc<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 505 | return readRegion(str, index, refId, 0, sequenceLength(index, refId)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/vcf_materialization.cpp:268:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 268 | if (readSequence(seq, faiIndex, currRID) != 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 50%] Linking CXX static library libmason_sim.a cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 && /usr/bin/cmake -P CMakeFiles/mason_sim.dir/cmake_clean_target.cmake cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 && /usr/bin/cmake -E cmake_link_script CMakeFiles/mason_sim.dir/link.txt --verbose=1 /usr/bin/ar qc libmason_sim.a CMakeFiles/mason_sim.dir/external_split_merge.cpp.o CMakeFiles/mason_sim.dir/genomic_variants.cpp.o CMakeFiles/mason_sim.dir/mason_options.cpp.o CMakeFiles/mason_sim.dir/methylation_levels.cpp.o CMakeFiles/mason_sim.dir/simulate_454.cpp.o CMakeFiles/mason_sim.dir/simulate_base.cpp.o CMakeFiles/mason_sim.dir/simulate_genome.cpp.o CMakeFiles/mason_sim.dir/simulate_illumina.cpp.o CMakeFiles/mason_sim.dir/simulate_sanger.cpp.o CMakeFiles/mason_sim.dir/vcf_materialization.cpp.o /usr/bin/ranlib libmason_sim.a make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 50%] Built target mason_sim make -f extras/apps/mason2/CMakeFiles/mason_genome.dir/build.make extras/apps/mason2/CMakeFiles/mason_genome.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2/CMakeFiles/mason_genome.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/mason2/CMakeFiles/mason_genome.dir/build.make extras/apps/mason2/CMakeFiles/mason_genome.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 50%] Building CXX object extras/apps/mason2/CMakeFiles/mason_genome.dir/mason_genome.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/mason2/CMakeFiles/mason_genome.dir/mason_genome.cpp.o -MF CMakeFiles/mason_genome.dir/mason_genome.cpp.o.d -o CMakeFiles/mason_genome.dir/mason_genome.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_genome.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_genome.cpp:40: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_genome.cpp:37: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/fai_index.h:40, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:83, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/simulate_genome.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_genome.cpp:42: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 51%] Linking CXX executable ../../../bin/mason_genome cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 && /usr/bin/cmake -E cmake_link_script CMakeFiles/mason_genome.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/mason_genome.dir/mason_genome.cpp.o -o ../../../bin/mason_genome -lrt -L/usr/lib64 -lz libmason_sim.a -lrt -L/usr/lib64 -lz In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 51%] Built target mason_genome make -f extras/apps/mason2/CMakeFiles/mason_methylation.dir/build.make extras/apps/mason2/CMakeFiles/mason_methylation.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2/CMakeFiles/mason_methylation.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/mason2/CMakeFiles/mason_methylation.dir/build.make extras/apps/mason2/CMakeFiles/mason_methylation.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 51%] Building CXX object extras/apps/mason2/CMakeFiles/mason_methylation.dir/mason_methylation.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/mason2/CMakeFiles/mason_methylation.dir/mason_methylation.cpp.o -MF CMakeFiles/mason_methylation.dir/mason_methylation.cpp.o.d -o CMakeFiles/mason_methylation.dir/mason_methylation.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_methylation.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/stream.h:86, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_methylation.cpp:39: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_methylation.cpp:37: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/fai_index.h:40, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:83: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:62, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/methylation_levels.h:38, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_methylation.cpp:43: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:45:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:54:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:63:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 63 | struct filterI3 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:401:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 401 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:507:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 507 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:78: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:42:48: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public ::std::binary_function < PageBucket, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:57:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:257:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 257 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:372:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 372 | struct insertBucket : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_set.h:373:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:404:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 404 | public::std::binary_function // functor for operator> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:744:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 744 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:760:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 760 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:80: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:854:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 854 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:902:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 902 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:970:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 970 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1039:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1039 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1073:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1073 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1121:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1121 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2093:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2093 | struct _qgramComp : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2112:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2112 | public ::std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:46:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 46 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:85:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 85 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:96: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:98:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 98 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:112:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 112 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:127:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:144:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:154:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:99: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:110:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 110 | public ::std::binary_function < SkewDCStream, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:143:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 143 | public ::std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:100: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:99:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 99 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:118:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:132:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 132 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:154:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:175:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 175 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:185:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 185 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:103: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:57:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:97:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 97 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:141:29: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:109: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:59:42: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:164:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, KasaiOriginal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:312:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 312 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:313:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 313 | LCP[isa - 1] = h; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:379:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 379 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:380:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 380 | LCP[i] = h | mark; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const StringSet&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:483:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 483 | for(TSize hMax = _min(getValueI2((TPair)dec), n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:484:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 484 | LCP[i] = h | mark; | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:113: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h:144:50: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:585:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 585 | public ::std::binary_function< Pair, Pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:128: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In function ‘void seqan::_storeWotdChildren(Index > >&, TSize, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:504:27: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 504 | } else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:506:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 506 | for (TDirSize d = index.sentinelBound - index.sentinelOcc; d != index.sentinelBound; ++d) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:136: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h:149:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 149 | struct RepeatLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:157: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h: In function ‘typename seqan::Iterator >::Type seqan::_upperBoundLcpe(TText&, TSA&, SearchTreeIterator, TQuery&, TDiff_, TDiff_)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1498:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1498 | for(; i && ordEqual(*t, convert(*q)); --i, ++t, ++q) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1501 | if (q == qEnd || t == tEnd || !ordGreater(*t, convert(*q))) { | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1925:45: required from ‘static typename seqan::Size::Type seqan::_Resize_String::resize_(T&, typename seqan::Size::Type, const TValue&) [with T = seqan::String, seqan::Alloc<> >; TValue = seqan::SimpleType; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1925 | TSize new_capacity = reserve(me, new_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1964:50: required from ‘typename seqan::Size >::Type seqan::resize(String&, TSize, const TValue2&, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = unsigned int; TValue2 = SimpleType; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1964 | return _Resize_String >::resize_(me, new_length, val); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2153:18: required from ‘typename seqan::Size::Type seqan::resize(T&, TSize, const TValue&) [with T = String, Alloc<> >; TSize = unsigned int; TValue = SimpleType; typename Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 2153 | return resize(me, new_length, val, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/fai_index.h:426:11: required from ‘int seqan::readRegion(String&, const FaiIndex&, unsigned int, unsigned int, unsigned int) [with TValue = SimpleType; TSpec = Alloc<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 426 | resize(str, toRead, TValue()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/fai_index.h:505:22: required from ‘int seqan::readSequence(String&, const FaiIndex&, unsigned int) [with TValue = SimpleType; TSpec = Alloc<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 505 | return readRegion(str, index, refId, 0, sequenceLength(index, refId)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_methylation.cpp:166:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 166 | if (readSequence(contig, faiIndex, i) != 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:64: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h: In member function ‘void seqan::SequenceStreamImpl_::_guessFileTypeAndFormatForReadingAndInitialize()’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:310:25: warning: this statement may fall through [-Wimplicit-fallthrough=] 310 | _fileFormat = this->_checkFormat(*_istreamReader); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:313:9: note: here 313 | case SeqIOFileType_::FILE_TYPE_AUTO: | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 51%] Linking CXX executable ../../../bin/mason_methylation cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 && /usr/bin/cmake -E cmake_link_script CMakeFiles/mason_methylation.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/mason_methylation.dir/mason_methylation.cpp.o -o ../../../bin/mason_methylation -lrt -L/usr/lib64 -lz libmason_sim.a -lrt -L/usr/lib64 -lz In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 51%] Built target mason_methylation make -f extras/apps/mason2/CMakeFiles/mason_frag_sequencing.dir/build.make extras/apps/mason2/CMakeFiles/mason_frag_sequencing.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2/CMakeFiles/mason_frag_sequencing.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/mason2/CMakeFiles/mason_frag_sequencing.dir/build.make extras/apps/mason2/CMakeFiles/mason_frag_sequencing.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 51%] Building CXX object extras/apps/mason2/CMakeFiles/mason_frag_sequencing.dir/mason_frag_sequencing.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/mason2/CMakeFiles/mason_frag_sequencing.dir/mason_frag_sequencing.cpp.o -MF CMakeFiles/mason_frag_sequencing.dir/mason_frag_sequencing.cpp.o.d -o CMakeFiles/mason_frag_sequencing.dir/mason_frag_sequencing.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_frag_sequencing.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/stream.h:86, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_frag_sequencing.cpp:39: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_frag_sequencing.cpp:37: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/fai_index.h:40, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:83: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:62, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/methylation_levels.h:38, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/sequencing.h:49, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_frag_sequencing.cpp:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:45:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:54:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:63:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 63 | struct filterI3 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:401:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 401 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:507:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 507 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:78: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:42:48: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public ::std::binary_function < PageBucket, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:57:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:257:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 257 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:372:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 372 | struct insertBucket : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_set.h:373:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:404:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 404 | public::std::binary_function // functor for operator> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:744:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 744 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:760:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 760 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:80: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:854:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 854 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:902:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 902 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:970:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 970 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1039:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1039 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1073:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1073 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1121:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1121 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2093:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2093 | struct _qgramComp : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2112:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2112 | public ::std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:46:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 46 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:85:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 85 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:96: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:98:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 98 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:112:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 112 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:127:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:144:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:154:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:99: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:110:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 110 | public ::std::binary_function < SkewDCStream, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:143:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 143 | public ::std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:100: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:99:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 99 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:118:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:132:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 132 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:154:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:175:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 175 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:185:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 185 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:103: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:57:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:97:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 97 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:141:29: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:109: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:59:42: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:164:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, KasaiOriginal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:312:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 312 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:313:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 313 | LCP[isa - 1] = h; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:379:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 379 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:380:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 380 | LCP[i] = h | mark; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const StringSet&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:483:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 483 | for(TSize hMax = _min(getValueI2((TPair)dec), n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:484:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 484 | LCP[i] = h | mark; | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:113: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h:144:50: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:585:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 585 | public ::std::binary_function< Pair, Pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:128: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In function ‘void seqan::_storeWotdChildren(Index > >&, TSize, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:504:27: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 504 | } else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:506:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 506 | for (TDirSize d = index.sentinelBound - index.sentinelOcc; d != index.sentinelBound; ++d) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:136: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h:149:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 149 | struct RepeatLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:157: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h: In function ‘typename seqan::Iterator >::Type seqan::_upperBoundLcpe(TText&, TSA&, SearchTreeIterator, TQuery&, TDiff_, TDiff_)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1498:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1498 | for(; i && ordEqual(*t, convert(*q)); --i, ++t, ++q) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1501 | if (q == qEnd || t == tEnd || !ordGreater(*t, convert(*q))) { | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/read_fasta_fastq.h:262:12: required from ‘int seqan::_clearAndReserveMemory(TIdString&, TSeqString&, RecordReader >&, const TTag&) [with TIdString = String >; TSeqString = String, Alloc<> >; TFile = String >; TSpec = Tag; TTag = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 262 | reserve(seq, seqLength, Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/read_fasta_fastq.h:557:37: required from ‘int seqan::readRecord(TIdString&, TSeqString&, RecordReader&, const Fasta&) [with TIdString = String >; TSeqString = String, Alloc<> >; TFile = String >; TPass = DoublePass >; Fasta = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 557 | int res = _clearAndReserveMemory(meta, seq, reader, Fasta()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:501:40: required from ‘int seqan::SequenceStreamImpl_::readRecord(TId&, TSequence&, const TFormatTag&) [with TId = seqan::String >; TSequence = seqan::String, seqan::Alloc<> >; TFormatTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 501 | res = seqan::readRecord(id, seq, *_mmapReaderDoublePass, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream.h:697:38: required from ‘int seqan::readRecord(TId&, TSequence&, SequenceStream&) [with TId = String >; TSequence = String, Alloc<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 697 | res = seqIO._impl->readRecord(id, seq, Fasta()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_frag_sequencing.cpp:202:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 202 | if (readRecord(fragId, fragSeq, inFragments) != 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:64: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h: In member function ‘void seqan::SequenceStreamImpl_::_guessFileTypeAndFormatForReadingAndInitialize()’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:310:25: warning: this statement may fall through [-Wimplicit-fallthrough=] 310 | _fileFormat = this->_checkFormat(*_istreamReader); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:313:9: note: here 313 | case SeqIOFileType_::FILE_TYPE_AUTO: | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 53%] Linking CXX executable ../../../bin/mason_frag_sequencing cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 && /usr/bin/cmake -E cmake_link_script CMakeFiles/mason_frag_sequencing.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/mason_frag_sequencing.dir/mason_frag_sequencing.cpp.o -o ../../../bin/mason_frag_sequencing -lrt -L/usr/lib64 -lz libmason_sim.a -lrt -L/usr/lib64 -lz In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘appendOperation’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/sequencing.h:365:22: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551600’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘appendOperation’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 53%] Built target mason_frag_sequencing make -f extras/apps/mason2/CMakeFiles/mason_variator.dir/build.make extras/apps/mason2/CMakeFiles/mason_variator.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2/CMakeFiles/mason_variator.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/mason2/CMakeFiles/mason_variator.dir/build.make extras/apps/mason2/CMakeFiles/mason_variator.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 53%] Building CXX object extras/apps/mason2/CMakeFiles/mason_variator.dir/mason_variator.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/mason2/CMakeFiles/mason_variator.dir/mason_variator.cpp.o -MF CMakeFiles/mason_variator.dir/mason_variator.cpp.o.d -o CMakeFiles/mason_variator.dir/mason_variator.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_variator.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_variator.cpp:44: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:44: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/fai_index.h:40, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:83, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_variator.cpp:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_variator.cpp:48: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h: In function ‘int seqan::writeRecord(TStream&, const VcfRecord&, const VcfIOContext&, const Vcf&)’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:190:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 190 | else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:192:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 192 | streamWriteChar(stream, '\t'); | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:62, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_variator.cpp:50: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:45:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:54:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:63:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 63 | struct filterI3 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:401:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 401 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:507:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 507 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:78: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:42:48: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public ::std::binary_function < PageBucket, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:57:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:257:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 257 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:372:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 372 | struct insertBucket : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_set.h:373:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:404:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 404 | public::std::binary_function // functor for operator> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:744:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 744 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:760:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 760 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:80: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:854:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 854 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:902:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 902 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:970:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 970 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1039:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1039 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1073:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1073 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1121:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1121 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2093:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2093 | struct _qgramComp : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2112:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2112 | public ::std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:46:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 46 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:85:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 85 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:96: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:98:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 98 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:112:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 112 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:127:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:144:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:154:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:99: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:110:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 110 | public ::std::binary_function < SkewDCStream, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:143:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 143 | public ::std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:100: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:99:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 99 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:118:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:132:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 132 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:154:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:175:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 175 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:185:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 185 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:103: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:57:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:97:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 97 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:141:29: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:109: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:59:42: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:164:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, KasaiOriginal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:312:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 312 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:313:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 313 | LCP[isa - 1] = h; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:379:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 379 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:380:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 380 | LCP[i] = h | mark; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const StringSet&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:483:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 483 | for(TSize hMax = _min(getValueI2((TPair)dec), n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:484:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 484 | LCP[i] = h | mark; | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:113: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h:144:50: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:585:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 585 | public ::std::binary_function< Pair, Pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:128: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In function ‘void seqan::_storeWotdChildren(Index > >&, TSize, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:504:27: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 504 | } else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:506:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 506 | for (TDirSize d = index.sentinelBound - index.sentinelOcc; d != index.sentinelBound; ++d) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:136: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h:149:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 149 | struct RepeatLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:157: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h: In function ‘typename seqan::Iterator >::Type seqan::_upperBoundLcpe(TText&, TSA&, SearchTreeIterator, TQuery&, TDiff_, TDiff_)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1498:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1498 | for(; i && ordEqual(*t, convert(*q)); --i, ++t, ++q) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1501 | if (q == qEnd || t == tEnd || !ordGreater(*t, convert(*q))) { | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1925:45: required from ‘static typename seqan::Size::Type seqan::_Resize_String::resize_(T&, typename seqan::Size::Type, const TValue&) [with T = seqan::String, seqan::Alloc<> >; TValue = seqan::SimpleType; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1925 | TSize new_capacity = reserve(me, new_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1964:50: required from ‘typename seqan::Size >::Type seqan::resize(String&, TSize, const TValue2&, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = int; TValue2 = SimpleType; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1964 | return _Resize_String >::resize_(me, new_length, val); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2153:18: required from ‘typename seqan::Size::Type seqan::resize(T&, TSize, const TValue&) [with T = String, Alloc<> >; TSize = int; TValue = SimpleType; typename Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 2153 | return resize(me, new_length, val, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_variator.cpp:1085:15: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 1085 | resize(tos, options.numHaplotypes, from); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:64: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h: In member function ‘void seqan::SequenceStreamImpl_::_guessFileTypeAndFormatForReadingAndInitialize()’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:310:25: warning: this statement may fall through [-Wimplicit-fallthrough=] 310 | _fileFormat = this->_checkFormat(*_istreamReader); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:313:9: note: here 313 | case SeqIOFileType_::FILE_TYPE_AUTO: | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ In function ‘seqan::allocate >, StructuralVariantRecord, unsigned long, seqan::AllocateStorage_>(seqan::String >&, StructuralVariantRecord*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage(seqan::String >&, unsigned long)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, unsigned long>(seqan::String >&, unsigned long)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, unsigned long>(seqan::String >&, unsigned long, seqan::Tag)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ > >(seqan::String >&, seqan::Size > >::Type)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize >, unsigned long>(seqan::String >&, unsigned long)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack > >(seqan::String >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘StructuralVariantSimulator::_simulateFromSizes(Variants&, unsigned int, int, seqan::String > const&)’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_variator.cpp:317:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551504’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘StructuralVariantSimulator::_simulateFromSizes(Variants&, unsigned int, int, seqan::String > const&)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ [ 54%] Linking CXX executable ../../../bin/mason_variator cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 && /usr/bin/cmake -E cmake_link_script CMakeFiles/mason_variator.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/mason_variator.dir/mason_variator.cpp.o -o ../../../bin/mason_variator -lrt -L/usr/lib64 -lz libmason_sim.a -lrt -L/usr/lib64 -lz In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘obtainId’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_idmanager.h:205:9, inlined from ‘addVertex’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:534:33, inlined from ‘_createVertices’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_interface.h:709:65, inlined from ‘_copyGraph.constprop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:191:50: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551608’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_copyGraph.constprop’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘obtainId’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_idmanager.h:205:9, inlined from ‘addVertex’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:534:33, inlined from ‘_createVertices’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_interface.h:709:65, inlined from ‘_copyGraph.constprop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:192:24: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551608’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_copyGraph.constprop’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toHtml’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/tool_doc.h:284:34: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551568’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘_toHtml’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 54%] Built target mason_variator make -f extras/apps/mason2/CMakeFiles/mason_materializer.dir/build.make extras/apps/mason2/CMakeFiles/mason_materializer.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2/CMakeFiles/mason_materializer.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/mason2/CMakeFiles/mason_materializer.dir/build.make extras/apps/mason2/CMakeFiles/mason_materializer.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 54%] Building CXX object extras/apps/mason2/CMakeFiles/mason_materializer.dir/mason_materializer.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/mason2/CMakeFiles/mason_materializer.dir/mason_materializer.cpp.o -MF CMakeFiles/mason_materializer.dir/mason_materializer.cpp.o.d -o CMakeFiles/mason_materializer.dir/mason_materializer.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_materializer.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_materializer.cpp:43: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:44: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/fai_index.h:40, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:83, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_materializer.cpp:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_materializer.cpp:47: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h: In function ‘int seqan::writeRecord(TStream&, const VcfRecord&, const VcfIOContext&, const Vcf&)’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:190:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 190 | else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:192:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 192 | streamWriteChar(stream, '\t'); | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:62, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/methylation_levels.h:38, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/genomic_variants.h:52, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/vcf_materialization.h:44, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_materializer.cpp:49: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:45:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:54:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:63:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 63 | struct filterI3 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:401:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 401 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:507:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 507 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:78: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:42:48: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public ::std::binary_function < PageBucket, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:57:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:257:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 257 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:372:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 372 | struct insertBucket : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_set.h:373:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:404:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 404 | public::std::binary_function // functor for operator> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:744:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 744 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:760:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 760 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:80: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:854:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 854 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:902:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 902 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:970:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 970 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1039:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1039 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1073:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1073 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1121:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1121 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2093:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2093 | struct _qgramComp : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2112:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2112 | public ::std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:46:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 46 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:85:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 85 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:96: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:98:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 98 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:112:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 112 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:127:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:144:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:154:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:99: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:110:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 110 | public ::std::binary_function < SkewDCStream, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:143:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 143 | public ::std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:100: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:99:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 99 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:118:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:132:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 132 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:154:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:175:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 175 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:185:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 185 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:103: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:57:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:97:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 97 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:141:29: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:109: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:59:42: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:164:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, KasaiOriginal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:312:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 312 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:313:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 313 | LCP[isa - 1] = h; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:379:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 379 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:380:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 380 | LCP[i] = h | mark; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const StringSet&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:483:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 483 | for(TSize hMax = _min(getValueI2((TPair)dec), n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:484:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 484 | LCP[i] = h | mark; | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:113: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h:144:50: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:585:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 585 | public ::std::binary_function< Pair, Pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:128: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In function ‘void seqan::_storeWotdChildren(Index > >&, TSize, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:504:27: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 504 | } else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:506:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 506 | for (TDirSize d = index.sentinelBound - index.sentinelOcc; d != index.sentinelBound; ++d) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:136: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h:149:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 149 | struct RepeatLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:157: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h: In function ‘typename seqan::Iterator >::Type seqan::_upperBoundLcpe(TText&, TSA&, SearchTreeIterator, TQuery&, TDiff_, TDiff_)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1498:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1498 | for(; i && ordEqual(*t, convert(*q)); --i, ++t, ++q) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1501 | if (q == qEnd || t == tEnd || !ordGreater(*t, convert(*q))) { | ^~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_materializer.cpp: In member function ‘int MasonMaterializerApp::run()’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_materializer.cpp:110:33: warning: catching polymorphic type ‘class MasonIOException’ by value [-Wcatch-value=] 110 | catch (MasonIOException e) | ^ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:64: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h: In member function ‘void seqan::SequenceStreamImpl_::_guessFileTypeAndFormatForReadingAndInitialize()’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:310:25: warning: this statement may fall through [-Wimplicit-fallthrough=] 310 | _fileFormat = this->_checkFormat(*_istreamReader); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:313:9: note: here 313 | case SeqIOFileType_::FILE_TYPE_AUTO: | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 56%] Linking CXX executable ../../../bin/mason_materializer cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 && /usr/bin/cmake -E cmake_link_script CMakeFiles/mason_materializer.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/mason_materializer.dir/mason_materializer.cpp.o -o ../../../bin/mason_materializer -lrt -L/usr/lib64 -lz libmason_sim.a -lrt -L/usr/lib64 -lz In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘obtainId’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_idmanager.h:205:9, inlined from ‘addVertex’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:534:33, inlined from ‘_createVertices’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_interface.h:709:65, inlined from ‘_copyGraph.constprop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:191:50: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551608’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_copyGraph.constprop’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 56%] Built target mason_materializer make -f extras/apps/mason2/CMakeFiles/mason_simulator.dir/build.make extras/apps/mason2/CMakeFiles/mason_simulator.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2/CMakeFiles/mason_simulator.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/mason2/CMakeFiles/mason_simulator.dir/build.make extras/apps/mason2/CMakeFiles/mason_simulator.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 58%] Building CXX object extras/apps/mason2/CMakeFiles/mason_simulator.dir/mason_simulator.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/mason2/CMakeFiles/mason_simulator.dir/mason_simulator.cpp.o -MF CMakeFiles/mason_simulator.dir/mason_simulator.cpp.o.d -o CMakeFiles/mason_simulator.dir/mason_simulator.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_simulator.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/stream.h:86, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/fragment_generation.h:52, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_simulator.cpp:43: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_simulator.cpp:40: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/fai_index.h:40, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:83: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:62, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/methylation_levels.h:38, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/sequencing.h:49, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_simulator.cpp:44: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:45:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:54:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:63:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 63 | struct filterI3 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:401:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 401 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:507:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 507 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:78: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:42:48: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public ::std::binary_function < PageBucket, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:57:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:257:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 257 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:372:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 372 | struct insertBucket : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_set.h:373:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:404:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 404 | public::std::binary_function // functor for operator> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:744:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 744 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:760:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 760 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:80: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:854:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 854 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:902:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 902 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:970:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 970 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1039:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1039 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1073:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1073 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1121:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1121 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2093:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2093 | struct _qgramComp : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2112:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2112 | public ::std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:46:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 46 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:85:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 85 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:96: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:98:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 98 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:112:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 112 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:127:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:144:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:154:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:99: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:110:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 110 | public ::std::binary_function < SkewDCStream, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:143:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 143 | public ::std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:100: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:99:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 99 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:118:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:132:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 132 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:154:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:175:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 175 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:185:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 185 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:103: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:57:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:97:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 97 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:141:29: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:109: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:59:42: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:164:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, KasaiOriginal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:312:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 312 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:313:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 313 | LCP[isa - 1] = h; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:379:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 379 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:380:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 380 | LCP[i] = h | mark; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const StringSet&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:483:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 483 | for(TSize hMax = _min(getValueI2((TPair)dec), n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:484:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 484 | LCP[i] = h | mark; | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:113: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h:144:50: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:585:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 585 | public ::std::binary_function< Pair, Pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:128: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In function ‘void seqan::_storeWotdChildren(Index > >&, TSize, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:504:27: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 504 | } else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:506:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 506 | for (TDirSize d = index.sentinelBound - index.sentinelOcc; d != index.sentinelBound; ++d) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:136: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h:149:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 149 | struct RepeatLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:157: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h: In function ‘typename seqan::Iterator >::Type seqan::_upperBoundLcpe(TText&, TSA&, SearchTreeIterator, TQuery&, TDiff_, TDiff_)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1498:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1498 | for(; i && ordEqual(*t, convert(*q)); --i, ++t, ++q) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1501 | if (q == qEnd || t == tEnd || !ordGreater(*t, convert(*q))) { | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/vcf_materialization.h:42, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_simulator.cpp:47: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h: In function ‘int seqan::writeRecord(TStream&, const VcfRecord&, const VcfIOContext&, const Vcf&)’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:190:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 190 | else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:192:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 192 | streamWriteChar(stream, '\t'); | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/random.h:46, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/fragment_generation.h:50: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:192:9: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:192:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:606:19: required from ‘typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, InfixSegment>, Tag >; TValue = Segment, Alloc<> >, InfixSegment>; typename Value::Type = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:192:9: note: 606 | valueConstruct(ret, data); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:192:9: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:735:42: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Segment, Alloc<> >, InfixSegment>; TValue2 = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:192:9: note: 735 | me.data_value = _holderAllocateObject(me, value_); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:192:9: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:192:9: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:192:9: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Segment, Alloc<> >, InfixSegment>; typename Reference > >::Type = Segment, Alloc<> >, InfixSegment>&]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:192:9: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:192:9: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_array.h:243:34: required from ‘void seqan::_reinitArrayGaps(Gaps >&) [with TSequence = Segment, Alloc<> >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:192:9: note: 243 | _setLength(gaps, length(value(gaps._source))); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:192:9: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_array.h:153:25: required from ‘seqan::Gaps >::Gaps(TSequence&) [with TSequence = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:192:9: note: 153 | _reinitArrayGaps(*this); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:192:9: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_simulator.cpp:221:57: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:192:9: note: 221 | seqan::Gaps gapsContig(contigInfix); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:192:9: note: | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:93, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/fragment_generation.h:51: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_iterator.h:65, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:86: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:476:24: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 476 | TConstSeqHIterator seqHIter = begin(seqH, Rooted()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 732 | return _setUpAndRunAlignment(traceSegments, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, upperDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 733 | algoTag, TracebackConfig_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:172:44: required from ‘TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, const AlignConfig&, int, int, const TAlgoTag&) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag; bool TOP = false; bool LEFT = false; bool RIGHT = false; bool BOTTOM = false; TACSpec = Tag; TAlgoTag = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | TScoreValue res = _setUpAndRunAlignment(traceSegments, source(gapsH), source(gapsV), scoringScheme, alignConfig, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 173 | lowerDiag, upperDiag, algoTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:209:31: required from ‘TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, const AlignConfig&, int, int) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag; bool TOP = false; bool LEFT = false; bool RIGHT = false; bool BOTTOM = false; TACSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 209 | return globalAlignment(gapsH, gapsV, scoringScheme, alignConfig, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:226:27: required from ‘TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, int, int) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 226 | return globalAlignment(gapsH, gapsV, scoringScheme, alignConfig, lowerDiag, upperDiag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_simulator.cpp:229:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 229 | editDistance = globalAlignment(gapsContig, gapsRead, sScheme, lDiag, uDiag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:147:15: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 147 | : data_container(other_.data_container), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter > seqan::operator-(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>; TIterator = SimpleType*; TSpec = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:477:58: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 477 | TConstSeqHIterator seqHIterEnd = end(seqH, Rooted()) - 1; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 732 | return _setUpAndRunAlignment(traceSegments, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, upperDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 733 | algoTag, TracebackConfig_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:172:44: required from ‘TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, const AlignConfig&, int, int, const TAlgoTag&) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag; bool TOP = false; bool LEFT = false; bool RIGHT = false; bool BOTTOM = false; TACSpec = Tag; TAlgoTag = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 172 | TScoreValue res = _setUpAndRunAlignment(traceSegments, source(gapsH), source(gapsV), scoringScheme, alignConfig, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 173 | lowerDiag, upperDiag, algoTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:209:31: required from ‘TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, const AlignConfig&, int, int) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag; bool TOP = false; bool LEFT = false; bool RIGHT = false; bool BOTTOM = false; TACSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 209 | return globalAlignment(gapsH, gapsV, scoringScheme, alignConfig, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:226:27: required from ‘TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, int, int) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 226 | return globalAlignment(gapsH, gapsV, scoringScheme, alignConfig, lowerDiag, upperDiag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_simulator.cpp:229:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 229 | editDistance = globalAlignment(gapsContig, gapsRead, sScheme, lDiag, uDiag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:686:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 686 | return Iter >(container(left), hostIterator(left) - right); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter > seqan::operator+(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>; TIterator = SimpleType*; TSpec = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1205:52: required from ‘void seqan::_computeHammingDistance(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoringScheme = Score >; TBand = DPBand_ >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1205 | TConstSeqHIterator itH = begin(seqH, Rooted()) + _max(0, _min(seqHlength - 1, upperDiagonal(band))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1421:32: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1421 | _computeHammingDistance(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 732 | return _setUpAndRunAlignment(traceSegments, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, upperDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 733 | algoTag, TracebackConfig_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:172:44: required from ‘TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, const AlignConfig&, int, int, const TAlgoTag&) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag; bool TOP = false; bool LEFT = false; bool RIGHT = false; bool BOTTOM = false; TACSpec = Tag; TAlgoTag = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | TScoreValue res = _setUpAndRunAlignment(traceSegments, source(gapsH), source(gapsV), scoringScheme, alignConfig, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 173 | lowerDiag, upperDiag, algoTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:209:31: required from ‘TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, const AlignConfig&, int, int) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag; bool TOP = false; bool LEFT = false; bool RIGHT = false; bool BOTTOM = false; TACSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 209 | return globalAlignment(gapsH, gapsV, scoringScheme, alignConfig, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:226:27: required from ‘TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, int, int) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 226 | return globalAlignment(gapsH, gapsV, scoringScheme, alignConfig, lowerDiag, upperDiag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_simulator.cpp:229:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 229 | editDistance = globalAlignment(gapsContig, gapsRead, sScheme, lDiag, uDiag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:619:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 619 | return Iter >(container(left), hostIterator(left) + right); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter > seqan::operator+(const Iter >&, TIntegral) [with TContainer = Segment, Alloc<> >, InfixSegment>; TIterator = SimpleType*; TSpec = Tag; TIntegral = long int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1206:55: required from ‘void seqan::_computeHammingDistance(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoringScheme = Score >; TBand = DPBand_ >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1206 | TConstSeqHIterator itHEnd = begin(seqH, Rooted()) + _min(seqHlength - 1, upperDiagonal(band) + seqVlength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1421:32: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1421 | _computeHammingDistance(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 732 | return _setUpAndRunAlignment(traceSegments, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, upperDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 733 | algoTag, TracebackConfig_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:172:44: required from ‘TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, const AlignConfig&, int, int, const TAlgoTag&) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag; bool TOP = false; bool LEFT = false; bool RIGHT = false; bool BOTTOM = false; TACSpec = Tag; TAlgoTag = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | TScoreValue res = _setUpAndRunAlignment(traceSegments, source(gapsH), source(gapsV), scoringScheme, alignConfig, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 173 | lowerDiag, upperDiag, algoTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:209:31: required from ‘TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, const AlignConfig&, int, int) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag; bool TOP = false; bool LEFT = false; bool RIGHT = false; bool BOTTOM = false; TACSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 209 | return globalAlignment(gapsH, gapsV, scoringScheme, alignConfig, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:226:27: required from ‘TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, int, int) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 226 | return globalAlignment(gapsH, gapsV, scoringScheme, alignConfig, lowerDiag, upperDiag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_simulator.cpp:229:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 229 | editDistance = globalAlignment(gapsContig, gapsRead, sScheme, lDiag, uDiag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:609:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 609 | return Iter >(container(left), hostIterator(left) + right); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:476:40: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 476 | TConstSeqHIterator seqHIter = begin(seqH, Rooted()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 732 | return _setUpAndRunAlignment(traceSegments, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, upperDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 733 | algoTag, TracebackConfig_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:172:44: required from ‘TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, const AlignConfig&, int, int, const TAlgoTag&) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag; bool TOP = false; bool LEFT = false; bool RIGHT = false; bool BOTTOM = false; TACSpec = Tag; TAlgoTag = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | TScoreValue res = _setUpAndRunAlignment(traceSegments, source(gapsH), source(gapsV), scoringScheme, alignConfig, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 173 | lowerDiag, upperDiag, algoTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:209:31: required from ‘TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, const AlignConfig&, int, int) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag; bool TOP = false; bool LEFT = false; bool RIGHT = false; bool BOTTOM = false; TACSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 209 | return globalAlignment(gapsH, gapsV, scoringScheme, alignConfig, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:226:27: required from ‘TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, int, int) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 226 | return globalAlignment(gapsH, gapsV, scoringScheme, alignConfig, lowerDiag, upperDiag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_simulator.cpp:229:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 229 | editDistance = globalAlignment(gapsContig, gapsRead, sScheme, lDiag, uDiag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 541 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_endDefault(const T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:850:23: required from ‘typename seqan::Iterator >::Type seqan::end(const T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 850 | return _endDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:477:41: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 477 | TConstSeqHIterator seqHIterEnd = end(seqH, Rooted()) - 1; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 732 | return _setUpAndRunAlignment(traceSegments, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, upperDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 733 | algoTag, TracebackConfig_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:172:44: required from ‘TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, const AlignConfig&, int, int, const TAlgoTag&) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag; bool TOP = false; bool LEFT = false; bool RIGHT = false; bool BOTTOM = false; TACSpec = Tag; TAlgoTag = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | TScoreValue res = _setUpAndRunAlignment(traceSegments, source(gapsH), source(gapsV), scoringScheme, alignConfig, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 173 | lowerDiag, upperDiag, algoTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:209:31: required from ‘TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, const AlignConfig&, int, int) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag; bool TOP = false; bool LEFT = false; bool RIGHT = false; bool BOTTOM = false; TACSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 209 | return globalAlignment(gapsH, gapsV, scoringScheme, alignConfig, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:226:27: required from ‘TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, int, int) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 226 | return globalAlignment(gapsH, gapsV, scoringScheme, alignConfig, lowerDiag, upperDiag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_simulator.cpp:229:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 229 | editDistance = globalAlignment(gapsContig, gapsRead, sScheme, lDiag, uDiag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:777:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 777 | return TIterator(me, end(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:92: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:139:40: required from ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 139 | : data_container(_toPointer(container_)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:686:12: required from ‘seqan::Iter > seqan::operator-(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>; TIterator = SimpleType*; TSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 686 | return Iter >(container(left), hostIterator(left) - right); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:477:58: required from ‘void seqan::_computeUnbandedAlignment(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const DPProfile_&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_ >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoringScheme = Score >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 477 | TConstSeqHIterator seqHIterEnd = end(seqH, Rooted()) - 1; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_algorithm_impl.h:1419:34: required from ‘typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBand_&, const DPProfile_&) [with TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; typename Value::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1419 | _computeUnbandedAlignment(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, dpProfile); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:675:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TDPScoutStateSpec = Tag; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 675 | return _computeAlignment(traceSegments, dpScoutState, seqH, seqV, scoringScheme, DPBand_(lowerDiagonal, upperDiagonal), TDPProfile()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:716:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&, const TGapsTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; TGapsTag = TracebackConfig_, Tag >; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 716 | return _setUpAndRunAlignment(traceSegments, noState, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 717 | upperDiagonal, algoTag, gapsTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/dp_setup.h:732:33: required from ‘typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, const TSequenceH&, const TSequenceV&, const Score&, const TAlignConfig&, int, int, const TAlgoTag&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpec = Tag; TAlignConfig = AlignConfig<>; TAlgoTag = Tag; typename Value >::Type = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 732 | return _setUpAndRunAlignment(traceSegments, seqH, seqV, scoringScheme, alignConfig, lowerDiagonal, upperDiagonal, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 733 | algoTag, TracebackConfig_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:172:44: required from ‘TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, const AlignConfig&, int, int, const TAlgoTag&) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag; bool TOP = false; bool LEFT = false; bool RIGHT = false; bool BOTTOM = false; TACSpec = Tag; TAlgoTag = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 172 | TScoreValue res = _setUpAndRunAlignment(traceSegments, source(gapsH), source(gapsV), scoringScheme, alignConfig, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 173 | lowerDiag, upperDiag, algoTag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:209:31: required from ‘TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, const AlignConfig&, int, int) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag; bool TOP = false; bool LEFT = false; bool RIGHT = false; bool BOTTOM = false; TACSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 209 | return globalAlignment(gapsH, gapsV, scoringScheme, alignConfig, lowerDiag, upperDiag, NeedlemanWunsch()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_banded.h:226:27: required from ‘TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, int, int) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 226 | return globalAlignment(gapsH, gapsV, scoringScheme, alignConfig, lowerDiag, upperDiag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_simulator.cpp:229:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 229 | editDistance = globalAlignment(gapsContig, gapsRead, sScheme, lDiag, uDiag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1925:45: required from ‘static typename seqan::Size::Type seqan::_Resize_String::resize_(T&, typename seqan::Size::Type, const TValue&) [with T = seqan::String, seqan::Alloc<> >; TValue = seqan::SimpleType; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1925 | TSize new_capacity = reserve(me, new_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1964:50: required from ‘typename seqan::Size >::Type seqan::resize(String&, TSize, const TValue2&, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = unsigned int; TValue2 = SimpleType; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1964 | return _Resize_String >::resize_(me, new_length, val); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2153:18: required from ‘typename seqan::Size::Type seqan::resize(T&, TSize, const TValue&) [with T = String, Alloc<> >; TSize = unsigned int; TValue = SimpleType; typename Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2153 | return resize(me, new_length, val, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/fai_index.h:426:11: required from ‘int seqan::readRegion(String&, const FaiIndex&, unsigned int, unsigned int, unsigned int) [with TValue = SimpleType; TSpec = Alloc<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 426 | resize(str, toRead, TValue()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/fai_index.h:505:22: required from ‘int seqan::readSequence(String&, const FaiIndex&, unsigned int) [with TValue = SimpleType; TSpec = Alloc<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 505 | return readRegion(str, index, refId, 0, sequenceLength(index, refId)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_simulator.cpp:817:29: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 817 | if (readSequence(refSeq, vcfMat.faiIndex, rID) != 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:64: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h: In member function ‘void seqan::SequenceStreamImpl_::_guessFileTypeAndFormatForReadingAndInitialize()’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:310:25: warning: this statement may fall through [-Wimplicit-fallthrough=] 310 | _fileFormat = this->_checkFormat(*_istreamReader); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:313:9: note: here 313 | case SeqIOFileType_::FILE_TYPE_AUTO: | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/new_allocator.h:34, from /usr/include/c++/14/x86_64-redhat-linux/bits/c++allocator.h:33, from /usr/include/c++/14/bits/allocator.h:46, from /usr/include/c++/14/vector:63: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/sstream:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/fragment_generation.h:45: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 58%] Linking CXX executable ../../../bin/mason_simulator cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 && /usr/bin/cmake -E cmake_link_script CMakeFiles/mason_simulator.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/mason_simulator.dir/mason_simulator.cpp.o -o ../../../bin/mason_simulator -lrt -L/usr/lib64 -lz libmason_sim.a -lrt -L/usr/lib64 -lz In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘appendOperation’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/sequencing.h:365:22, inlined from ‘simulateRead’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/simulate_454.cpp:377:28: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551600’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘simulateRead’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘appendOperation’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/sequencing.h:365:22: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551600’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘appendOperation’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘obtainId’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_idmanager.h:205:9, inlined from ‘addVertex’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:534:33, inlined from ‘_createVertices’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_interface.h:709:65, inlined from ‘_copyGraph.constprop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:191:50: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551608’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_copyGraph.constprop’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 58%] Built target mason_simulator make -f extras/apps/mason2/CMakeFiles/mason_splicing.dir/build.make extras/apps/mason2/CMakeFiles/mason_splicing.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2/CMakeFiles/mason_splicing.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/mason2/CMakeFiles/mason_splicing.dir/build.make extras/apps/mason2/CMakeFiles/mason_splicing.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 59%] Building CXX object extras/apps/mason2/CMakeFiles/mason_splicing.dir/mason_splicing.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/mason2/CMakeFiles/mason_splicing.dir/mason_splicing.cpp.o -MF CMakeFiles/mason_splicing.dir/mason_splicing.cpp.o.d -o CMakeFiles/mason_splicing.dir/mason_splicing.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_splicing.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_splicing.cpp:42: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:44: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/fai_index.h:40, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:83, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_splicing.cpp:44: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_splicing.cpp:46: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h: In function ‘int seqan::writeRecord(TStream&, const VcfRecord&, const VcfIOContext&, const Vcf&)’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:190:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 190 | else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/vcf_io/write_vcf.h:192:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 192 | streamWriteChar(stream, '\t'); | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:62, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/methylation_levels.h:38, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/genomic_variants.h:52, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/vcf_materialization.h:44, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_splicing.cpp:49: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:45:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:54:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:63:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 63 | struct filterI3 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:401:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 401 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:507:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 507 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:78: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:42:48: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public ::std::binary_function < PageBucket, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:57:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:257:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 257 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:372:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 372 | struct insertBucket : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_set.h:373:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:404:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 404 | public::std::binary_function // functor for operator> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:744:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 744 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:760:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 760 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:80: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:854:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 854 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:902:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 902 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:970:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 970 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1039:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1039 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1073:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1073 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1121:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1121 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2093:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2093 | struct _qgramComp : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2112:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2112 | public ::std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:46:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 46 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:85:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 85 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:96: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:98:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 98 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:112:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 112 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:127:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:144:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:154:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:99: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:110:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 110 | public ::std::binary_function < SkewDCStream, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:143:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 143 | public ::std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:100: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:99:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 99 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:118:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:132:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 132 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:154:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:175:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 175 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:185:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 185 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:103: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:57:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:97:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 97 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:141:29: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:109: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:59:42: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:164:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, KasaiOriginal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:312:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 312 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:313:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 313 | LCP[isa - 1] = h; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:379:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 379 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:380:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 380 | LCP[i] = h | mark; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const StringSet&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:483:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 483 | for(TSize hMax = _min(getValueI2((TPair)dec), n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:484:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 484 | LCP[i] = h | mark; | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:113: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h:144:50: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:585:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 585 | public ::std::binary_function< Pair, Pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:128: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In function ‘void seqan::_storeWotdChildren(Index > >&, TSize, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:504:27: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 504 | } else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:506:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 506 | for (TDirSize d = index.sentinelBound - index.sentinelOcc; d != index.sentinelBound; ++d) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:136: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h:149:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 149 | struct RepeatLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:157: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h: In function ‘typename seqan::Iterator >::Type seqan::_upperBoundLcpe(TText&, TSA&, SearchTreeIterator, TQuery&, TDiff_, TDiff_)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1498:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1498 | for(; i && ordEqual(*t, convert(*q)); --i, ++t, ++q) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1501 | if (q == qEnd || t == tEnd || !ordGreater(*t, convert(*q))) { | ^~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_splicing.cpp: In member function ‘int MasonSplicingApp::run()’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_splicing.cpp:138:33: warning: catching polymorphic type ‘class MasonIOException’ by value [-Wcatch-value=] 138 | catch (MasonIOException e) | ^ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_splicing.cpp:138:33: warning: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_splicing.cpp:138:33: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1444:21: required from ‘void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_splicing.cpp:138:33: warning: 1444 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_splicing.cpp:138:33: warning: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1465:31: required from ‘void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_splicing.cpp:138:33: warning: 1465 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_splicing.cpp:138:33: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:849:31: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String, seqan::Alloc<> >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_splicing.cpp:138:33: warning: 849 | arrayConstructMove(old_array, old_array + start, seq_array); /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_splicing.cpp:138:33: warning: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: required from ‘typename seqan::Size >::Type seqan::_clearSpace(String&, TSize, TPosition, TPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long unsigned int; TPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_splicing.cpp:138:33: warning: 1014 | return ClearSpaceStringBase_ >::_clearSpace_(me, size, pos_begin, pos_end); /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_splicing.cpp:138:33: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1367:67: required from ‘static void seqan::AppendString_::append_(TTarget&, TSource&) [with TTarget = seqan::String, seqan::Alloc<> >; TSource = const seqan::String, seqan::Alloc<> >; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_splicing.cpp:138:33: warning: 1367 | typename Size::Type part_length = _clearSpace(target, length(source), target_length, target_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_splicing.cpp:138:33: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42: required from ‘void seqan::append(String&, const TSource&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = String, Alloc<> >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_splicing.cpp:138:33: warning: 1421 | AppendString_ >::append_(target, source); /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_splicing.cpp:138:33: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1608:11: required from ‘void seqan::append(TTarget&, TSource&) [with TTarget = String, Alloc<> >; TSource = String, Alloc<> >]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_splicing.cpp:138:33: warning: 1608 | append(target, source, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_splicing.cpp:138:33: warning: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_splicing.cpp:292:23: required from here /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_splicing.cpp:138:33: warning: 292 | append(transcript, buffer); /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_splicing.cpp:138:33: warning: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1589:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1589 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveBackwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1641:30: required from ‘void seqan::arrayMoveBackward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1641 | _arrayMoveBackwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1213:26: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = SimpleType*; TSource1 = SimpleType*; TSource2 = SimpleType*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1213 | arrayMoveBackward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1660:14: required from ‘void seqan::_arrayClearSpacePointer(TValue*, size_t, size_t, size_t, const True&) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1660 | arrayMove(array_begin + keep_from, array_begin + array_length, array_begin + move_to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1681:28: required from ‘void seqan::arrayClearSpace(TValue*, size_t, size_t, size_t) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1681 | _arrayClearSpacePointer(array_begin, array_length, keep_from, move_to, typename IsSimple::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:856:28: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String, seqan::Alloc<> >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 856 | arrayClearSpace(seq_array + start, old_length - start, removed_size, size); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: required from ‘typename seqan::Size >::Type seqan::_clearSpace(String&, TSize, TPosition, TPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long unsigned int; TPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1014 | return ClearSpaceStringBase_ >::_clearSpace_(me, size, pos_begin, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1367:67: required from ‘static void seqan::AppendString_::append_(TTarget&, TSource&) [with TTarget = seqan::String, seqan::Alloc<> >; TSource = const seqan::String, seqan::Alloc<> >; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1367 | typename Size::Type part_length = _clearSpace(target, length(source), target_length, target_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42: required from ‘void seqan::append(String&, const TSource&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = String, Alloc<> >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1421 | AppendString_ >::append_(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1608:11: required from ‘void seqan::append(TTarget&, TSource&) [with TTarget = String, Alloc<> >; TSource = String, Alloc<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1608 | append(target, source, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_splicing.cpp:292:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 292 | append(transcript, buffer); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1621:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1621 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:64: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h: In member function ‘void seqan::SequenceStreamImpl_::_guessFileTypeAndFormatForReadingAndInitialize()’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:310:25: warning: this statement may fall through [-Wimplicit-fallthrough=] 310 | _fileFormat = this->_checkFormat(*_istreamReader); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:313:9: note: here 313 | case SeqIOFileType_::FILE_TYPE_AUTO: | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 59%] Linking CXX executable ../../../bin/mason_splicing cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 && /usr/bin/cmake -E cmake_link_script CMakeFiles/mason_splicing.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/mason_splicing.dir/mason_splicing.cpp.o -o ../../../bin/mason_splicing -lrt -L/usr/lib64 -lz libmason_sim.a -lrt -L/usr/lib64 -lz In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘obtainId’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_idmanager.h:205:9, inlined from ‘addVertex’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:534:33, inlined from ‘_createVertices’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_interface.h:709:65, inlined from ‘_copyGraph.constprop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:191:50: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551608’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_copyGraph.constprop’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 59%] Built target mason_splicing make -f extras/apps/mason2/CMakeFiles/mason_tests.dir/build.make extras/apps/mason2/CMakeFiles/mason_tests.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2/CMakeFiles/mason_tests.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/mason2/CMakeFiles/mason_tests.dir/build.make extras/apps/mason2/CMakeFiles/mason_tests.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 61%] Building CXX object extras/apps/mason2/CMakeFiles/mason_tests.dir/mason_tests.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/mason2/CMakeFiles/mason_tests.dir/mason_tests.cpp.o -MF CMakeFiles/mason_tests.dir/mason_tests.cpp.o.d -o CMakeFiles/mason_tests.dir/mason_tests.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_tests.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/sequencing.h:42, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_tests.cpp:40: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/mason_tests.cpp:38: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:48: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_stream.h:50, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:107: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:62, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/methylation_levels.h:38, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/sequencing.h:49: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:45:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:54:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:63:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 63 | struct filterI3 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:401:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 401 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:507:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 507 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:78: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:42:48: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public ::std::binary_function < PageBucket, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:57:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:257:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 257 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:372:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 372 | struct insertBucket : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_set.h:373:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:404:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 404 | public::std::binary_function // functor for operator> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:744:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 744 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:760:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 760 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:80: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:854:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 854 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:902:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 902 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:970:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 970 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1039:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1039 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1073:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1073 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1121:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1121 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2093:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2093 | struct _qgramComp : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2112:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2112 | public ::std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:46:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 46 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:85:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 85 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:96: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:98:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 98 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:112:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 112 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:127:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:144:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:154:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:99: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:110:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 110 | public ::std::binary_function < SkewDCStream, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:143:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 143 | public ::std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:100: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:99:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 99 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:118:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:132:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 132 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:154:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:175:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 175 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:185:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 185 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:103: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:57:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:97:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 97 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:141:29: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:109: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:59:42: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:164:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, KasaiOriginal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:312:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 312 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:313:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 313 | LCP[isa - 1] = h; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:379:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 379 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:380:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 380 | LCP[i] = h | mark; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const StringSet&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:483:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 483 | for(TSize hMax = _min(getValueI2((TPair)dec), n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:484:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 484 | LCP[i] = h | mark; | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:113: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h:144:50: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:585:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 585 | public ::std::binary_function< Pair, Pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:128: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In function ‘void seqan::_storeWotdChildren(Index > >&, TSize, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:504:27: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 504 | } else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:506:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 506 | for (TDirSize d = index.sentinelBound - index.sentinelOcc; d != index.sentinelBound; ++d) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:136: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h:149:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 149 | struct RepeatLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:157: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h: In function ‘typename seqan::Iterator >::Type seqan::_upperBoundLcpe(TText&, TSA&, SearchTreeIterator, TQuery&, TDiff_, TDiff_)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1498:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1498 | for(; i && ordEqual(*t, convert(*q)); --i, ++t, ++q) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1501 | if (q == qEnd || t == tEnd || !ordGreater(*t, convert(*q))) { | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, seqan::Alloc >, seqan::CigarElement, unsigned long, seqan::AllocateStorage_>(seqan::String, seqan::Alloc >&, seqan::CigarElement*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, void, unsigned long>(seqan::String, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, seqan::Alloc, unsigned long>(seqan::String, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, seqan::Alloc, unsigned long>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, seqan::Alloc > >(seqan::String, seqan::Alloc >&, seqan::Size, seqan::Alloc > >::Type)seqan::Size, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, seqan::Alloc >, unsigned long>(seqan::String, seqan::Alloc >&, unsigned long)seqan::Size, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, seqan::Alloc > >(seqan::String, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘appendOperation(seqan::String, seqan::Alloc >&, char)’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/sequencing.h:365:22, inlined from ‘appendOperation(seqan::String, seqan::Alloc >&, char)’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/sequencing.h:356:28: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551600’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘appendOperation(seqan::String, seqan::Alloc >&, char)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, unsigned int, unsigned long, seqan::AllocateStorage_>(seqan::String >&, unsigned int*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage(seqan::String >&, unsigned long)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, unsigned long>(seqan::String >&, unsigned long)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, unsigned long>(seqan::String >&, unsigned long, seqan::Tag)seqan::Value >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ > >(seqan::String >&, seqan::Size > >::Type)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, unsigned long, seqan::TagGenerous_>(seqan::String >&, unsigned long, seqan::Tag)seqan::Size > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::obtainId >(seqan::IdManager >&)seqan::Value >, 0>::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_idmanager.h:205:9, inlined from ‘seqan::addVertex const>(seqan::Graph const> >&)seqan::VertexDescriptor const> > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:534:33: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551608’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘seqan::addVertex const>(seqan::Graph const> >&)seqan::VertexDescriptor const> > >::Type’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 61%] Linking CXX executable ../../../bin/mason_tests cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 && /usr/bin/cmake -E cmake_link_script CMakeFiles/mason_tests.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/mason_tests.dir/mason_tests.cpp.o -o ../../../bin/mason_tests -lrt -L/usr/lib64 -lz libmason_sim.a -lrt -L/usr/lib64 -lz In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘obtainId’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_idmanager.h:205:9, inlined from ‘addVertex’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:534:33: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551608’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘addVertex’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘appendOperation’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/sequencing.h:365:22, inlined from ‘appendOperation’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2/sequencing.h:356:28: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551600’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘appendOperation’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toHtml’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/tool_doc.h:284:34: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551568’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘_toHtml’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 61%] Built target mason_tests make -f extras/apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build.make extras/apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/ngs_roi /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build.make extras/apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 61%] Building CXX object extras/apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/roi_plot_thumbnails.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/ngs_roi && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/roi_plot_thumbnails.cpp.o -MF CMakeFiles/roi_plot_thumbnails.dir/roi_plot_thumbnails.cpp.o.d -o CMakeFiles/roi_plot_thumbnails.dir/roi_plot_thumbnails.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi/roi_plot_thumbnails.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi/roi_plot_thumbnails.cpp:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi/roi_plot_thumbnails.cpp:37: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/roi_io/roi_io_context.h:40, from /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/roi_io.h:54, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi/roi_plot_thumbnails.cpp:46: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:44: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 61%] Linking CXX executable ../../../bin/roi_plot_thumbnails cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/ngs_roi && /usr/bin/cmake -E cmake_link_script CMakeFiles/roi_plot_thumbnails.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/roi_plot_thumbnails.dir/roi_plot_thumbnails.cpp.o -o ../../../bin/roi_plot_thumbnails -lrt -L/usr/lib64 -lz In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 61%] Built target roi_plot_thumbnails make -f extras/apps/ngs_roi/CMakeFiles/bam2roi.dir/build.make extras/apps/ngs_roi/CMakeFiles/bam2roi.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/ngs_roi /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/ngs_roi/CMakeFiles/bam2roi.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/ngs_roi/CMakeFiles/bam2roi.dir/build.make extras/apps/ngs_roi/CMakeFiles/bam2roi.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 62%] Building CXX object extras/apps/ngs_roi/CMakeFiles/bam2roi.dir/bam2roi.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/ngs_roi && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/ngs_roi/CMakeFiles/bam2roi.dir/bam2roi.cpp.o -MF CMakeFiles/bam2roi.dir/bam2roi.cpp.o.d -o CMakeFiles/bam2roi.dir/bam2roi.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi/bam2roi.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi/bam2roi.cpp:40: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi/bam2roi.cpp:37: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:48, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi/bam2roi.cpp:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_stream.h:50, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:107: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa.h:44, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus.h:43, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi/roi_builder.h:41, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi/bam2roi.cpp:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_base.h:343:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 343 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa.h:48: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_guidetree.h: In function ‘void seqan::njTree(const String&, Graph >&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_guidetree.h:148:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 148 | for (unsigned i = 0; i < length(mat); ++i) | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_guidetree.h:152:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 152 | String<__int64> av; // Average branch length to a combined node | ^~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa.h:49: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h: In function ‘void seqan::read(TFile&, StringSet&, TNames&, FastaAlign)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:416:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 416 | if (atEnd(reader)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:420:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 420 | TString seq; | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h: In function ‘void seqan::read(TFile&, String&, String&, const TNames&, FastaAlign)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:534:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 534 | if (atEnd(reader)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:538:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 538 | String mat; | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h: In function ‘void seqan::read(TFile&, String&, String&, const TStringSet&, const TNames&, MummerLib)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:878:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 878 | if (atEnd(reader)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:880:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 880 | TName seq1; | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h: In function ‘void seqan::read(TFile&, Graph >&, TNames&, NewickFormat)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:985:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 985 | if (atEnd(reader)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:988:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 988 | TVertexDescriptor lastVertex = nilVertex; | ^~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus.h:48: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_base.h: In function ‘void seqan::getGappedConsensus(FragmentStore&, TGappedConsensus&, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_base.h:387:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 387 | for(int i = 0; i < ((int) itGaps->gapPos - (int) itGaps->seqPos) - diff; ++i) | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_base.h:389:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 389 | diff = (itGaps->gapPos - itGaps->seqPos); | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus.h:51: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_library.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_library.h:91:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 91 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_library.h:102:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 102 | public ::std::unary_function >, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:44: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 62%] Building CXX object extras/apps/ngs_roi/CMakeFiles/bam2roi.dir/roi_builder.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/ngs_roi && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/ngs_roi/CMakeFiles/bam2roi.dir/roi_builder.cpp.o -MF CMakeFiles/bam2roi.dir/roi_builder.cpp.o.d -o CMakeFiles/bam2roi.dir/roi_builder.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi/roi_builder.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/roi_io.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi/roi_builder.h:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi/roi_builder.cpp:35: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi/roi_builder.h:38: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/roi_io/roi_io_context.h:40, from /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/roi_io.h:54: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa.h:44, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus.h:43, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi/roi_builder.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_base.h:343:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 343 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa.h:48: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_guidetree.h: In function ‘void seqan::njTree(const String&, Graph >&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_guidetree.h:148:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 148 | for (unsigned i = 0; i < length(mat); ++i) | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_guidetree.h:152:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 152 | String<__int64> av; // Average branch length to a combined node | ^~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa.h:49: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h: In function ‘void seqan::read(TFile&, StringSet&, TNames&, FastaAlign)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:416:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 416 | if (atEnd(reader)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:420:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 420 | TString seq; | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h: In function ‘void seqan::read(TFile&, String&, String&, const TNames&, FastaAlign)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:534:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 534 | if (atEnd(reader)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:538:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 538 | String mat; | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h: In function ‘void seqan::read(TFile&, String&, String&, const TStringSet&, const TNames&, MummerLib)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:878:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 878 | if (atEnd(reader)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:880:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 880 | TName seq1; | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h: In function ‘void seqan::read(TFile&, Graph >&, TNames&, NewickFormat)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:985:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 985 | if (atEnd(reader)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_msa/graph_align_tcoffee_io.h:988:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 988 | TVertexDescriptor lastVertex = nilVertex; | ^~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus.h:48: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_base.h: In function ‘void seqan::getGappedConsensus(FragmentStore&, TGappedConsensus&, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_base.h:387:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 387 | for(int i = 0; i < ((int) itGaps->gapPos - (int) itGaps->seqPos) - diff; ++i) | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_base.h:389:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 389 | diff = (itGaps->gapPos - itGaps->seqPos); | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus.h:51: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_library.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_library.h:91:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 91 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/consensus/consensus_library.h:102:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 102 | public ::std::unary_function >, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 64%] Linking CXX executable ../../../bin/bam2roi cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/ngs_roi && /usr/bin/cmake -E cmake_link_script CMakeFiles/bam2roi.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/bam2roi.dir/bam2roi.cpp.o CMakeFiles/bam2roi.dir/roi_builder.cpp.o -o ../../../bin/bam2roi -lrt -L/usr/lib64 -lz In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toHtml’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/tool_doc.h:284:34: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551568’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘_toHtml’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 64%] Built target bam2roi make -f extras/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build.make extras/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/ngs_roi /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build.make extras/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 64%] Building CXX object extras/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/roi_feature_projection.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/ngs_roi && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/roi_feature_projection.cpp.o -MF CMakeFiles/roi_feature_projection.dir/roi_feature_projection.cpp.o.d -o CMakeFiles/roi_feature_projection.dir/roi_feature_projection.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi/roi_feature_projection.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi/roi_feature_projection.cpp:46: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/sstream:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi/roi_feature_projection.cpp:41: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/bed_io/bed_io_context.h:40, from /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/bed_io.h:54, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi/project_interval.h:42, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi/roi_feature_projection.cpp:48: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi/roi_feature_projection.cpp:43: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 66%] Building CXX object extras/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/project_spliced.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/ngs_roi && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/project_spliced.cpp.o -MF CMakeFiles/roi_feature_projection.dir/project_spliced.cpp.o.d -o CMakeFiles/roi_feature_projection.dir/project_spliced.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi/project_spliced.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/gff_io.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi/project_spliced.h:51, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi/project_spliced.cpp:36: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi/project_spliced.h:48: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/roi_io/roi_io_context.h:40, from /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/roi_io.h:54, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi/project_spliced.h:52: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 66%] Building CXX object extras/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/project_interval.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/ngs_roi && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/project_interval.cpp.o -MF CMakeFiles/roi_feature_projection.dir/project_interval.cpp.o.d -o CMakeFiles/roi_feature_projection.dir/project_interval.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi/project_interval.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/bed_io.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi/project_interval.h:42, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi/project_interval.cpp:36: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi/project_interval.h:38: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/bed_io/bed_io_context.h:40, from /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/bed_io.h:54: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 67%] Linking CXX executable ../../../bin/roi_feature_projection cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/ngs_roi && /usr/bin/cmake -E cmake_link_script CMakeFiles/roi_feature_projection.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/roi_feature_projection.dir/roi_feature_projection.cpp.o CMakeFiles/roi_feature_projection.dir/project_spliced.cpp.o CMakeFiles/roi_feature_projection.dir/project_interval.cpp.o -o ../../../bin/roi_feature_projection -lrt -L/usr/lib64 -lz In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 67%] Built target roi_feature_projection make -f extras/apps/param_chooser/CMakeFiles/param_chooser.dir/build.make extras/apps/param_chooser/CMakeFiles/param_chooser.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/param_chooser /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/param_chooser/CMakeFiles/param_chooser.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/param_chooser/CMakeFiles/param_chooser.dir/build.make extras/apps/param_chooser/CMakeFiles/param_chooser.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 67%] Building CXX object extras/apps/param_chooser/CMakeFiles/param_chooser.dir/param_chooser.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/param_chooser && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/param_chooser/CMakeFiles/param_chooser.dir/param_chooser.cpp.o -MF CMakeFiles/param_chooser.dir/param_chooser.cpp.o.d -o CMakeFiles/param_chooser.dir/param_chooser.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp:37: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp:32: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/find_motif.h:64, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp:38: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/find_motif/find_motif_pms1.h: In function ‘void seqan::pms1(TStrings&, TStrings&, const TType&, const TType&, const bool&, const Oops&)’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/find_motif/find_motif_pms1.h:264:82: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 264 | std::count_if(vect_iter, upper_iter, std::bind2nd(std::equal_to(), *vect_iter)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/stl_function.h:1435: /usr/include/c++/14/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/find_motif.h:66: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/find_motif/find_motif_projection.h: In function ‘void seqan::_filteringStep(TBucketAr&, TArray&, TType&, TStrings&, TPositions&, const TType&, const TType&)’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/find_motif/find_motif_projection.h:627:50: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = greater_equal; _Tp = int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 627 | bind2nd(std::greater_equal(),static_cast(s))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/fai_index.h:40, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:83, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:33, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp:40: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:62, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:29, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:34: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:45:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:54:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:63:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 63 | struct filterI3 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:401:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 401 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:507:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 507 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:78: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:42:48: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public ::std::binary_function < PageBucket, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:57:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:257:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 257 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:372:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 372 | struct insertBucket : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_set.h:373:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:404:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 404 | public::std::binary_function // functor for operator> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:744:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 744 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:760:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 760 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:80: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:854:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 854 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:902:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 902 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:970:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 970 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1039:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1039 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1073:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1073 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1121:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1121 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2093:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2093 | struct _qgramComp : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2112:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2112 | public ::std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:46:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 46 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:85:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 85 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:96: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:98:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 98 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:112:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 112 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:127:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:144:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:154:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:99: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:110:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 110 | public ::std::binary_function < SkewDCStream, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:143:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 143 | public ::std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:100: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:99:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 99 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:118:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:132:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 132 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:154:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:175:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 175 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:185:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 185 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:103: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:57:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:97:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 97 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:141:29: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:109: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:59:42: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:164:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, KasaiOriginal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:312:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 312 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:313:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 313 | LCP[isa - 1] = h; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:379:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 379 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:380:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 380 | LCP[i] = h | mark; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const StringSet&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:483:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 483 | for(TSize hMax = _min(getValueI2((TPair)dec), n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:484:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 484 | LCP[i] = h | mark; | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:113: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h:144:50: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:585:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 585 | public ::std::binary_function< Pair, Pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:128: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In function ‘void seqan::_storeWotdChildren(Index > >&, TSize, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:504:27: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 504 | } else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:506:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 506 | for (TDirSize d = index.sentinelBound - index.sentinelOcc; d != index.sentinelBound; ++d) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:136: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h:149:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 149 | struct RepeatLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:157: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h: In function ‘typename seqan::Iterator >::Type seqan::_upperBoundLcpe(TText&, TSA&, SearchTreeIterator, TQuery&, TDiff_, TDiff_)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1498:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1498 | for(; i && ordEqual(*t, convert(*q)); --i, ++t, ++q) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1501 | if (q == qEnd || t == tEnd || !ordGreater(*t, convert(*q))) { | ^~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:712:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 712 | struct LessRNoGPos : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:740:47: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 740 | struct LessRNoGEndPos : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:766:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 766 | struct LessErrors : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:784:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 784 | struct LessSplicedScore : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:806:45: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 806 | struct LessSplicedScoreGPos : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h: In function ‘int seqan::qualityDistributionFromPrbFile(TFile&, TDistribution&, ParamChooserOptions&)’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:198:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 198 | if (skipWhitespaces(reader) != 0) | ^~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:201:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 201 | int kickout = 0; | ^~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h: In function ‘int seqan::qualityDistributionFromFastQIntFile(TFile&, TDistribution&, ParamChooserOptions&)’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:373:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 373 | if (pm_options.verbose) | ^~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:376:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 376 | resize(avg,pm_options.totalN,(TFloat)0.0); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h: In function ‘bool seqan::parseGappedParams(RazerSOptions&, TFile&, ParamChooserOptions&)’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:934:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 934 | if (value(reader) == 'e') | ^~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 938 | bool atLeastOneFound = false; | ^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h: In instantiation of ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal) [with TMatch = ReadMatch; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, InfixSegment>, Myers >, Alloc<> >; TSpec = RazerSSpec; SwiftSemiGlobal = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:1694:15: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: 1694 | matchVerify(m, infix(swiftFinder), rseqNo, readSet, forwardPatterns, options, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2134:18: required from ‘int seqan::mapSingleReads(TMatches&, TGenomeSet&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: 2134 | mapSingleReads(matches, genomeSet[gseqNo], gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2208:24: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: 2208 | return mapSingleReads(matches, genomeSet, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2308:19: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TReadRegions = int; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: 2308 | return mapReads(matches, genomeSet, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:830:13: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: 830 | mapReads(matches, testGenome, testReads,dummy, dummy, razersOptions); /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:1228:24: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: 1228 | makeSelectedStatsFile(errorDistribution,pm_options); /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp:340:21: required from here /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: 340 | chooseParams(r_options, pm_options); /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:1466:33: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1466 | TGenomeInfixRev infRev(inf); | ^~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:93, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp:36: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:162: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = String, Alloc<> >; TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1876 | _patternInit(pattern, errorRate, minLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:1689:13: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1689 | while (find(swiftFinder, swiftPattern, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2134:18: required from ‘int seqan::mapSingleReads(TMatches&, TGenomeSet&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 2134 | mapSingleReads(matches, genomeSet[gseqNo], gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2208:24: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 2208 | return mapSingleReads(matches, genomeSet, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2300:19: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TReadRegions = int; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 2300 | return mapReads(matches, genomeSet, readSet, cnts, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:830:13: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 830 | mapReads(matches, testGenome, testReads,dummy, dummy, razersOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:1228:24: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1228 | makeSelectedStatsFile(errorDistribution,pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp:340:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 340 | chooseParams(r_options, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:77: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = String, Alloc<> >; TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1876 | _patternInit(pattern, errorRate, minLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:1689:13: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1689 | while (find(swiftFinder, swiftPattern, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2134:18: required from ‘int seqan::mapSingleReads(TMatches&, TGenomeSet&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2134 | mapSingleReads(matches, genomeSet[gseqNo], gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2208:24: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2208 | return mapSingleReads(matches, genomeSet, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2303:19: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TReadRegions = int; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2303 | return mapReads(matches, genomeSet, readSet, cnts, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:830:13: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 830 | mapReads(matches, testGenome, testReads,dummy, dummy, razersOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:1228:24: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1228 | makeSelectedStatsFile(errorDistribution,pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp:340:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 340 | chooseParams(r_options, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/find_motif.h:49: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_iterator.h:65, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:86, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:51: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:440:5: required from ‘seqan::Finder::Finder(THaystack&) [with THaystack = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 440 | : data_iterator(begin(haystack, Rooted())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:1435:15: required from ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal) [with TMatch = ReadMatch; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, InfixSegment>, Myers >, Alloc<> >; TSpec = RazerSSpec; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1435 | TMyersFinder myersFinder(inf); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:1694:15: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1694 | matchVerify(m, infix(swiftFinder), rseqNo, readSet, forwardPatterns, options, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2134:18: required from ‘int seqan::mapSingleReads(TMatches&, TGenomeSet&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2134 | mapSingleReads(matches, genomeSet[gseqNo], gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2208:24: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2208 | return mapSingleReads(matches, genomeSet, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2308:19: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TReadRegions = int; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2308 | return mapReads(matches, genomeSet, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:830:13: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 830 | mapReads(matches, testGenome, testReads,dummy, dummy, razersOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:1228:24: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1228 | makeSelectedStatsFile(errorDistribution,pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp:340:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 340 | chooseParams(r_options, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:147:15: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 147 | : data_container(other_.data_container), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:92: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:77: required from ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:1466:19: required from ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal) [with TMatch = ReadMatch; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, InfixSegment>, Myers >, Alloc<> >; TSpec = RazerSSpec; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1466 | TGenomeInfixRev infRev(inf); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:1694:15: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1694 | matchVerify(m, infix(swiftFinder), rseqNo, readSet, forwardPatterns, options, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2134:18: required from ‘int seqan::mapSingleReads(TMatches&, TGenomeSet&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2134 | mapSingleReads(matches, genomeSet[gseqNo], gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2208:24: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2208 | return mapSingleReads(matches, genomeSet, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2308:19: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TReadRegions = int; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2308 | return mapReads(matches, genomeSet, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:830:13: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 830 | mapReads(matches, testGenome, testReads,dummy, dummy, razersOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:1228:24: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1228 | makeSelectedStatsFile(errorDistribution,pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp:340:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 340 | chooseParams(r_options, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:77: required from ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:1467:13: required from ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal) [with TMatch = ReadMatch; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, InfixSegment>, Myers >, Alloc<> >; TSpec = RazerSSpec; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1467 | TReadRev readRev(readSet[rseqNo]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:1694:15: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1694 | matchVerify(m, infix(swiftFinder), rseqNo, readSet, forwardPatterns, options, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2134:18: required from ‘int seqan::mapSingleReads(TMatches&, TGenomeSet&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2134 | mapSingleReads(matches, genomeSet[gseqNo], gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2208:24: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2208 | return mapSingleReads(matches, genomeSet, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2308:19: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TReadRegions = int; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2308 | return mapReads(matches, genomeSet, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:830:13: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 830 | mapReads(matches, testGenome, testReads,dummy, dummy, razersOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:1228:24: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1228 | makeSelectedStatsFile(errorDistribution,pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp:340:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 340 | chooseParams(r_options, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = String, Alloc<> >; TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1876 | _patternInit(pattern, errorRate, minLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:1689:13: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1689 | while (find(swiftFinder, swiftPattern, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2134:18: required from ‘int seqan::mapSingleReads(TMatches&, TGenomeSet&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2134 | mapSingleReads(matches, genomeSet[gseqNo], gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2208:24: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2208 | return mapSingleReads(matches, genomeSet, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2311:19: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TReadRegions = int; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2311 | return mapReads(matches, genomeSet, readSet, cnts, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:830:13: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 830 | mapReads(matches, testGenome, testReads,dummy, dummy, razersOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:1228:24: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1228 | makeSelectedStatsFile(errorDistribution,pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp:340:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 340 | chooseParams(r_options, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: required from ‘bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = String, Alloc<> >; TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSpec = Tag >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1876 | _patternInit(pattern, errorRate, minLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1860:16: required from ‘bool seqan::find(TFinder&, Pattern > > >&, double) [with TFinder = Finder, Alloc<> >, Swift > > >; TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1860 | return find(finder, pattern, errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:1689:13: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1689 | while (find(swiftFinder, swiftPattern, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2134:18: required from ‘int seqan::mapSingleReads(TMatches&, TGenomeSet&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2134 | mapSingleReads(matches, genomeSet[gseqNo], gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2208:24: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2208 | return mapSingleReads(matches, genomeSet, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2314:19: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TReadRegions = int; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2314 | return mapReads(matches, genomeSet, readSet, cnts, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:830:13: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 830 | mapReads(matches, testGenome, testReads,dummy, dummy, razersOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:1228:24: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1228 | makeSelectedStatsFile(errorDistribution,pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp:340:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 340 | chooseParams(r_options, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:616:25: required from ‘typename seqan::Iterator >::Type seqan::begin(T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 616 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:440:24: required from ‘seqan::Finder::Finder(THaystack&) [with THaystack = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 440 | : data_iterator(begin(haystack, Rooted())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:1435:15: required from ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal) [with TMatch = ReadMatch; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, InfixSegment>, Myers >, Alloc<> >; TSpec = RazerSSpec; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1435 | TMyersFinder myersFinder(inf); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:1694:15: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1694 | matchVerify(m, infix(swiftFinder), rseqNo, readSet, forwardPatterns, options, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2134:18: required from ‘int seqan::mapSingleReads(TMatches&, TGenomeSet&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2134 | mapSingleReads(matches, genomeSet[gseqNo], gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2208:24: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2208 | return mapSingleReads(matches, genomeSet, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2308:19: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TReadRegions = int; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2308 | return mapReads(matches, genomeSet, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:830:13: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 830 | mapReads(matches, testGenome, testReads,dummy, dummy, razersOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:1228:24: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1228 | makeSelectedStatsFile(errorDistribution,pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp:340:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 340 | chooseParams(r_options, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:532:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 532 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = unsigned int; TExpand = TagGenerous_; typename Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45: required from ‘static typename seqan::Size::Type seqan::_Resize_String::resize_(T&, typename seqan::Size::Type) [with T = seqan::String, seqan::Alloc<> >; TExpand = seqan::Tag; typename seqan::Size::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1887 | TSize new_capacity = reserve(me, new_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50: required from ‘typename seqan::Size >::Type seqan::resize(String&, TSize, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long int; TExpand = TagGenerous_; typename Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1952 | return _Resize_String >::resize_(me, new_length); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18: required from ‘typename seqan::Size::Type seqan::resize(T&, TSize) [with T = String, Alloc<> >; TSize = long int; typename Size::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2143 | return resize(me, new_length, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/file_format_mmap.h:793:9: required from ‘void seqan::assignSeq(TSeq&, const TFastaSeq&, Fastq) [with TSeq = String, Alloc<> >; TFastaSeq = Segment >, InfixSegment>; Fastq = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 793 | resize(dst, itEnd - it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/file_format_mmap.h:1423:13: required from ‘void seqan::assignSeq(TSeq&, const TFileSeq&, const TagSelector&) [with TSeq = String, Alloc<> >; TFileSeq = Segment >, InfixSegment>; TTagList = TagList, TagList, TagList > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1423 | assignSeq(dst, seq, TFormatTag()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:620:11: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 620 | assignSeq(firstRead, multiFasta[0], format); // read the first sequence /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:69: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSource = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TValue2 = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; typename Reference > >::Type = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Swift > >; typename Host >::Type = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:1661:31: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1661 | TReadSet &readSet = host(host(swiftPattern)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2134:18: required from ‘int seqan::mapSingleReads(TMatches&, TGenomeSet&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2134 | mapSingleReads(matches, genomeSet[gseqNo], gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2208:24: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2208 | return mapSingleReads(matches, genomeSet, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2297:19: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TReadRegions = int; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2297 | return mapReads(matches, genomeSet, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:830:13: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 830 | mapReads(matches, testGenome, testReads,dummy, dummy, razersOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:1228:24: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1228 | makeSelectedStatsFile(errorDistribution,pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp:340:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 340 | chooseParams(r_options, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: because ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText_ = seqan::StringSet >, seqan::Owner > >; TShapeSpec = seqan::Shape, seqan::UngappedShape<0> >; TSpec = seqan::Tag]’ 368 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSource = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TValue2 = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; typename Reference > >::Type = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Swift > >; typename Host >::Type = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:1661:31: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 1661 | TReadSet &readSet = host(host(swiftPattern)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2134:18: required from ‘int seqan::mapSingleReads(TMatches&, TGenomeSet&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 2134 | mapSingleReads(matches, genomeSet[gseqNo], gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2208:24: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 2208 | return mapSingleReads(matches, genomeSet, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2300:19: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TReadRegions = int; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 2300 | return mapReads(matches, genomeSet, readSet, cnts, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:830:13: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 830 | mapReads(matches, testGenome, testReads,dummy, dummy, razersOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:1228:24: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 1228 | makeSelectedStatsFile(errorDistribution,pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp:340:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: 340 | chooseParams(r_options, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: because ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText_ = seqan::StringSet >, seqan::Owner > >; TShapeSpec = seqan::Shape, seqan::OneGappedShape>; TSpec = seqan::Tag]’ 368 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:333:15: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 333 | class Index > { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSource = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TValue2 = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; typename Reference > >::Type = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSpec = Swift > >; typename Host >::Type = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:1661:31: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1661 | TReadSet &readSet = host(host(swiftPattern)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2134:18: required from ‘int seqan::mapSingleReads(TMatches&, TGenomeSet&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2134 | mapSingleReads(matches, genomeSet[gseqNo], gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2208:24: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2208 | return mapSingleReads(matches, genomeSet, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2303:19: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TReadRegions = int; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2303 | return mapReads(matches, genomeSet, readSet, cnts, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:830:13: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 830 | mapReads(matches, testGenome, testReads,dummy, dummy, razersOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:1228:24: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1228 | makeSelectedStatsFile(errorDistribution,pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp:340:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 340 | chooseParams(r_options, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:368:17: note: because ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText_ = seqan::StringSet >, seqan::Owner > >; TShapeSpec = seqan::Shape, seqan::GappedShape > >; TSpec = seqan::Tag]’ 368 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:333:15: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 333 | class Index > { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:52, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:28: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::container(Finder&) [with THaystack = Segment, Alloc<> >, InfixSegment>; TSpec = void; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1724:42: required from ‘bool seqan::find(TFinder&, const Pattern >&, PatternState_ >&) [with TFinder = Finder, Alloc<> >, InfixSegment>, void>; TNeedle = Segment >, InfixSegment>; TSpec = FindInfix; THasState = True; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1724 | TSize haystack_length = length(container(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1756:13: required from ‘bool seqan::find(TFinder&, const Pattern >&, PatternState_ >&, int) [with TFinder = Finder, Alloc<> >, InfixSegment>, void>; TNeedle = Segment >, InfixSegment>; TSpec = FindInfix; THasState = True; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1756 | return find(finder, pattern, state); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1774:13: required from ‘bool seqan::find(TFinder&, Pattern >&, int) [with TFinder = Finder, Alloc<> >, InfixSegment>, void>; TNeedle = Segment >, InfixSegment>; TSpec = FindInfix; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1774 | return find(finder, pattern, pattern, minScore); //static cast /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:1450:13: required from ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal) [with TMatch = ReadMatch; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, InfixSegment>, Myers >, Alloc<> >; TSpec = RazerSSpec; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1450 | while (find(myersFinder, myersPattern, minScore)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:1694:15: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1694 | matchVerify(m, infix(swiftFinder), rseqNo, readSet, forwardPatterns, options, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2134:18: required from ‘int seqan::mapSingleReads(TMatches&, TGenomeSet&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2134 | mapSingleReads(matches, genomeSet[gseqNo], gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2208:24: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2208 | return mapSingleReads(matches, genomeSet, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2308:19: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TReadRegions = int; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2308 | return mapReads(matches, genomeSet, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:830:13: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 830 | mapReads(matches, testGenome, testReads,dummy, dummy, razersOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:1228:24: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1228 | makeSelectedStatsFile(errorDistribution,pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp:340:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 340 | chooseParams(r_options, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:793:42: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 793 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_endDefault(T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:841:23: required from ‘typename seqan::Iterator >::Type seqan::end(T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 841 | return _endDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_reverse.h:463:24: required from ‘typename seqan::Iterator >, const seqan::Tag >::Type seqan::begin(ModifiedString >&, Tag) [with THost = Segment, Alloc<> >, InfixSegment>; TTagSpec = Rooted_; typename Iterator >, const Tag >::Type = ModifiedIterator, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 463 | TIterator temp_(end(host(me), Rooted())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:440:24: required from ‘seqan::Finder::Finder(THaystack&) [with THaystack = seqan::ModifiedString, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Tag >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 440 | : data_iterator(begin(haystack, Rooted())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:1468:19: required from ‘bool seqan::matchVerify(TMatch&, Segment, unsigned int, TReadSet&, TMyersPatterns&, const RazerSOptions&, SwiftSemiGlobal) [with TMatch = ReadMatch; TGenome = String, Alloc<> >; TReadSet = StringSet >, Owner > >; TMyersPatterns = String >, InfixSegment>, Myers >, Alloc<> >; TSpec = RazerSSpec; SwiftSemiGlobal = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1468 | TMyersFinderRev myersFinderRev(infRev); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:1694:15: required from ‘void seqan::mapSingleReads(TMatches&, TGenome&, unsigned int, Pattern >&, TVerifier&, TCounts&, char, RazerSOptions&) [with TMatches = String >; TGenome = String, Alloc<> >; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSwiftSpec = Tag >; TVerifier = String >, InfixSegment>, Myers >, Alloc<> >; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1694 | matchVerify(m, infix(swiftFinder), rseqNo, readSet, forwardPatterns, options, TSwiftSpec())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2134:18: required from ‘int seqan::mapSingleReads(TMatches&, TGenomeSet&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2134 | mapSingleReads(matches, genomeSet[gseqNo], gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2208:24: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2208 | return mapSingleReads(matches, genomeSet, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2308:19: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TReadRegions = int; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2308 | return mapReads(matches, genomeSet, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:830:13: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 830 | mapReads(matches, testGenome, testReads,dummy, dummy, razersOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:1228:24: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1228 | makeSelectedStatsFile(errorDistribution,pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp:340:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 340 | chooseParams(r_options, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:768:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 768 | return TIterator(me, end(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1444:21: required from ‘void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1444 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1465:31: required from ‘void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1465 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:849:31: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 849 | arrayConstructMove(old_array, old_array + start, seq_array); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42: required from ‘void seqan::append(String&, const TSource&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = String, Alloc<> >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1421 | AppendString_ >::append_(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_concat_direct.h:318:11: required from ‘void seqan::appendValue(StringSet > >&, const TString2&, Tag) [with TString = String >; TString2 = String, Alloc<> >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 318 | append(me.concat, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/readSimulator.h:433:16: required from ‘void seqan::simulateReads(TReadSet&, TReadIDs&, TGenomeSet&, int, int, TDistr&, int, int, double, bool) [with TReadSet = StringSet >, Owner > >; TReadIDs = StringSet > >; TGenomeSet = StringSet, Alloc<> > >; TDistr = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 433 | appendValue(readSet, read, Generous()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:755:15: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 755 | simulateReads( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^ 756 | testReads, dummyIDs, testGenome, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 757 | 50000, maxErrors+1, logErrorDistribution, 0, 0, 0.5, true); // generate 50K reads /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:1228:24: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1228 | makeSelectedStatsFile(errorDistribution,pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp:340:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 340 | chooseParams(r_options, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1589:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1589 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:61: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_iterator.h: In instantiation of ‘typename seqan::Container >::Type seqan::container(ModifiedIterator&) [with THost = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; TSpec = Tag; typename Container >::Type = ModifiedString, Alloc<> >, InfixSegment>, Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:793:18: required from ‘typename seqan::Parameter_::Type seqan::container(Finder&) [with THaystack = ModifiedString, Alloc<> >, InfixSegment>, Tag >; TSpec = void; typename Parameter_::Type = ModifiedString, Alloc<> >, InfixSegment>, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 793 | return container(hostIterator(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1724:42: required from ‘bool seqan::find(TFinder&, const Pattern >&, PatternState_ >&) [with TFinder = Finder, Alloc<> >, InfixSegment>, Tag >, void>; TNeedle = ModifiedString >, InfixSegment>, Tag >; TSpec = FindPrefix; THasState = True; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1724 | TSize haystack_length = length(container(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1756:13: required from ‘bool seqan::find(TFinder&, const Pattern >&, PatternState_ >&, int) [with TFinder = Finder, Alloc<> >, InfixSegment>, Tag >, void>; TNeedle = ModifiedString >, InfixSegment>, Tag >; TSpec = FindPrefix; THasState = True; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1756 | return find(finder, pattern, state); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1774:13: required from ‘bool seqan::find(TFinder&, Pattern >&, int) [with TFinder = Finder, Alloc<> >, InfixSegment>, Tag >, void>; TNeedle = ModifiedString >, InfixSegment>, Tag >; TSpec = FindPrefix; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1774 | return find(finder, pattern, pattern, minScore); //static cast /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:1473:13: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2134:18: required from ‘int seqan::mapSingleReads(TMatches&, TGenomeSet&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2134 | mapSingleReads(matches, genomeSet[gseqNo], gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2208:24: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2208 | return mapSingleReads(matches, genomeSet, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2308:19: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TReadRegions = int; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2308 | return mapReads(matches, genomeSet, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:830:13: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 830 | mapReads(matches, testGenome, testReads,dummy, dummy, razersOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:1228:24: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1228 | makeSelectedStatsFile(errorDistribution,pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp:340:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 340 | chooseParams(r_options, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_iterator.h:294:16: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 294 | TContainer cont(container(host(me))); | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveBackwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1641:30: required from ‘void seqan::arrayMoveBackward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1641 | _arrayMoveBackwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1213:26: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = SimpleType*; TSource1 = SimpleType*; TSource2 = SimpleType*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1213 | arrayMoveBackward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1660:14: required from ‘void seqan::_arrayClearSpacePointer(TValue*, size_t, size_t, size_t, const True&) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1660 | arrayMove(array_begin + keep_from, array_begin + array_length, array_begin + move_to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1681:28: required from ‘void seqan::arrayClearSpace(TValue*, size_t, size_t, size_t) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1681 | _arrayClearSpacePointer(array_begin, array_length, keep_from, move_to, typename IsSimple::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:856:28: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 856 | arrayClearSpace(seq_array + start, old_length - start, removed_size, size); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42: required from ‘void seqan::append(String&, const TSource&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = String, Alloc<> >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1421 | AppendString_ >::append_(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_concat_direct.h:318:11: required from ‘void seqan::appendValue(StringSet > >&, const TString2&, Tag) [with TString = String >; TString2 = String, Alloc<> >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 318 | append(me.concat, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/readSimulator.h:433:16: required from ‘void seqan::simulateReads(TReadSet&, TReadIDs&, TGenomeSet&, int, int, TDistr&, int, int, double, bool) [with TReadSet = StringSet >, Owner > >; TReadIDs = StringSet > >; TGenomeSet = StringSet, Alloc<> > >; TDistr = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 433 | appendValue(readSet, read, Generous()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:755:15: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 755 | simulateReads( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~^ 756 | testReads, dummyIDs, testGenome, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 757 | 50000, maxErrors+1, logErrorDistribution, 0, 0, 0.5, true); // generate 50K reads /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:1228:24: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1228 | makeSelectedStatsFile(errorDistribution,pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp:340:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 340 | chooseParams(r_options, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1621:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1621 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1925:45: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2153:18: required from ‘typename seqan::Size::Type seqan::resize(T&, TSize, const TValue&) [with T = String >; TSize = int; TValue = SimpleType; typename Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2153 | return resize(me, new_length, val, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:484:9: required from ‘void seqan::initPatterns(TStateString&, const TShape&, int, const TLogErrorDistr&, TDistance, bool) [with TStateString = String, float>, Alloc<> >; TShape = String >; TLogErrorDistr = String; TDistance = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 484 | resize(pattern, span, (ErrorAlphabet)SEQAN_MATCH); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:1118:14: required from ‘void seqan::qgramFilteringSensitivity(TSensitivityMatrix&, const TShape&, TPatternSize, TErrors, TThresh, TDistance, ThreshExact, const TErrorDist&) [with TSensitivityMatrix = String; TShape = Shape, GappedShape > >; TPatternSize = unsigned int; TErrors = unsigned int; TThresh = unsigned int; TDistance = Tag; TErrorDist = String; ThreshExact = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1118 | initPatterns(states, bitString, errors, logErrorDistribution, dist, true); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:778:30: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 778 | qgramFilteringSensitivity(sensMat, shape, totalN, maxErrors - 1, maxT - 1, HammingDistance(), ThreshExact(), logErrorDistribution); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:1228:24: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1228 | makeSelectedStatsFile(errorDistribution,pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp:340:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 340 | chooseParams(r_options, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1444:21: required from ‘void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1444 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1465:31: required from ‘void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1465 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:849:31: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 849 | arrayConstructMove(old_array, old_array + start, seq_array); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: required from ‘typename seqan::Size >::Type seqan::_clearSpace(String&, TSize, TPosition, TPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long unsigned int; TPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1014 | return ClearSpaceStringBase_ >::_clearSpace_(me, size, pos_begin, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1048:30: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1845:16: required from ‘void seqan::insertValue(T&, TPosition, const TValue&) [with T = String >; TPosition = int; TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1845 | insertValue(me, pos, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:511:16: required from ‘void seqan::initPatterns(TStateString&, const TShape&, int, const TLogErrorDistr&, TDistance, bool) [with TStateString = String, float>, Alloc<> >; TShape = String >; TLogErrorDistr = String; TDistance = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 511 | insertValue(pattern, mods[i].i1, (ErrorAlphabet)SEQAN_INSERT); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:1118:14: required from ‘void seqan::qgramFilteringSensitivity(TSensitivityMatrix&, const TShape&, TPatternSize, TErrors, TThresh, TDistance, ThreshExact, const TErrorDist&) [with TSensitivityMatrix = String; TShape = Shape, GappedShape > >; TPatternSize = unsigned int; TErrors = unsigned int; TThresh = unsigned int; TDistance = Tag; TErrorDist = String; ThreshExact = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1118 | initPatterns(states, bitString, errors, logErrorDistribution, dist, true); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:778:30: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 778 | qgramFilteringSensitivity(sensMat, shape, totalN, maxErrors - 1, maxT - 1, HammingDistance(), ThreshExact(), logErrorDistribution); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:1228:24: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1228 | makeSelectedStatsFile(errorDistribution,pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp:340:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 340 | chooseParams(r_options, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1589:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1589 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, UngappedShape<0> >; TDir = String; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1593:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1593 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, UngappedShape<0> >; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, UngappedShape<0> >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, UngappedShape<0> >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2134:18: required from ‘int seqan::mapSingleReads(TMatches&, TGenomeSet&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2134 | mapSingleReads(matches, genomeSet[gseqNo], gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2208:24: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2208 | return mapSingleReads(matches, genomeSet, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2297:19: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TReadRegions = int; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2297 | return mapReads(matches, genomeSet, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:830:13: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 830 | mapReads(matches, testGenome, testReads,dummy, dummy, razersOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:1228:24: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1228 | makeSelectedStatsFile(errorDistribution,pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp:340:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 340 | chooseParams(r_options, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:56, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:71: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, UngappedShape<0> >; TDir = String; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1604:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1604 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, UngappedShape<0> >; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, UngappedShape<0> >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, UngappedShape<0> >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2134:18: required from ‘int seqan::mapSingleReads(TMatches&, TGenomeSet&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2134 | mapSingleReads(matches, genomeSet[gseqNo], gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2208:24: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2208 | return mapSingleReads(matches, genomeSet, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2297:19: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TReadRegions = int; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2297 | return mapReads(matches, genomeSet, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:830:13: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 830 | mapReads(matches, testGenome, testReads,dummy, dummy, razersOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:1228:24: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1228 | makeSelectedStatsFile(errorDistribution,pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp:340:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 340 | chooseParams(r_options, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, OneGappedShape>; TDir = String; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1593:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1593 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, OneGappedShape>; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, OneGappedShape>, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, OneGappedShape>, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2134:18: required from ‘int seqan::mapSingleReads(TMatches&, TGenomeSet&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2134 | mapSingleReads(matches, genomeSet[gseqNo], gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2208:24: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2208 | return mapSingleReads(matches, genomeSet, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2300:19: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TReadRegions = int; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2300 | return mapReads(matches, genomeSet, readSet, cnts, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:830:13: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 830 | mapReads(matches, testGenome, testReads,dummy, dummy, razersOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:1228:24: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1228 | makeSelectedStatsFile(errorDistribution,pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp:340:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 340 | chooseParams(r_options, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, OneGappedShape>; TDir = String; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1604:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1604 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, OneGappedShape>; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, OneGappedShape>, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, OneGappedShape>, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2134:18: required from ‘int seqan::mapSingleReads(TMatches&, TGenomeSet&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2134 | mapSingleReads(matches, genomeSet[gseqNo], gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2208:24: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, OneGappedShape>; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2208 | return mapSingleReads(matches, genomeSet, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2300:19: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TReadRegions = int; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2300 | return mapReads(matches, genomeSet, readSet, cnts, options, onegapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:830:13: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 830 | mapReads(matches, testGenome, testReads,dummy, dummy, razersOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:1228:24: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1228 | makeSelectedStatsFile(errorDistribution,pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp:340:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 340 | chooseParams(r_options, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, GappedShape > >; TDir = String; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = True]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1593:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1593 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, GappedShape > >; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, GappedShape > >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, GappedShape > >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2134:18: required from ‘int seqan::mapSingleReads(TMatches&, TGenomeSet&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2134 | mapSingleReads(matches, genomeSet[gseqNo], gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2208:24: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2208 | return mapSingleReads(matches, genomeSet, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2303:19: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TReadRegions = int; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2303 | return mapReads(matches, genomeSet, readSet, cnts, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:830:13: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 830 | mapReads(matches, testGenome, testReads,dummy, dummy, razersOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:1228:24: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1228 | makeSelectedStatsFile(errorDistribution,pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp:340:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 340 | chooseParams(r_options, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner >; TShape = Shape, GappedShape > >; TDir = String; TBucketMap = Nothing; TStepSize = long unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1604:25: required from ‘void seqan::createQGramIndex(TIndex&) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1604 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, getStepSize(index), False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2565:19: required from ‘bool seqan::indexCreate(Index >&, FibreSADir, Default) [with TText = StringSet >, Owner > >; TShapeSpec = Shape, GappedShape > >; TSpec = Tag; FibreSADir = const Tag; Default = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2565 | createQGramIndex(index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, GappedShape > >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet >, Owner > >; TSpec = IndexQGram, GappedShape > >, Tag >; TFibre = FibreSADir_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:712:21: required from ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 712 | indexRequire(host(pattern), QGramSADir()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1876:21: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2134:18: required from ‘int seqan::mapSingleReads(TMatches&, TGenomeSet&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2134 | mapSingleReads(matches, genomeSet[gseqNo], gseqNo, swiftPattern, forwardPatterns, cnts, 'F', options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2208:24: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, GappedShape > >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2208 | return mapSingleReads(matches, genomeSet, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2303:19: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TReadRegions = int; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 2303 | return mapReads(matches, genomeSet, readSet, cnts, options, gapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:830:13: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 830 | mapReads(matches, testGenome, testReads,dummy, dummy, razersOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:1228:24: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1228 | makeSelectedStatsFile(errorDistribution,pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp:340:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 340 | chooseParams(r_options, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveBackwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1641:30: required from ‘void seqan::arrayMoveBackward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1641 | _arrayMoveBackwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1213:26: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = SimpleType*; TSource1 = SimpleType*; TSource2 = SimpleType*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1213 | arrayMoveBackward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1660:14: required from ‘void seqan::_arrayClearSpacePointer(TValue*, size_t, size_t, size_t, const True&) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1660 | arrayMove(array_begin + keep_from, array_begin + array_length, array_begin + move_to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1681:28: required from ‘void seqan::arrayClearSpace(TValue*, size_t, size_t, size_t) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1681 | _arrayClearSpacePointer(array_begin, array_length, keep_from, move_to, typename IsSimple::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:856:28: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 856 | arrayClearSpace(seq_array + start, old_length - start, removed_size, size); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1845:16: required from ‘void seqan::insertValue(T&, TPosition, const TValue&) [with T = String >; TPosition = int; TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1845 | insertValue(me, pos, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:511:16: required from ‘void seqan::initPatterns(TStateString&, const TShape&, int, const TLogErrorDistr&, TDistance, bool) [with TStateString = String, float>, Alloc<> >; TShape = String >; TLogErrorDistr = String; TDistance = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 511 | insertValue(pattern, mods[i].i1, (ErrorAlphabet)SEQAN_INSERT); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:1118:14: required from ‘void seqan::qgramFilteringSensitivity(TSensitivityMatrix&, const TShape&, TPatternSize, TErrors, TThresh, TDistance, ThreshExact, const TErrorDist&) [with TSensitivityMatrix = String; TShape = Shape, GappedShape > >; TPatternSize = unsigned int; TErrors = unsigned int; TThresh = unsigned int; TDistance = Tag; TErrorDist = String; ThreshExact = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1118 | initPatterns(states, bitString, errors, logErrorDistribution, dist, true); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:778:30: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 778 | qgramFilteringSensitivity(sensMat, shape, totalN, maxErrors - 1, maxT - 1, HammingDistance(), ThreshExact(), logErrorDistribution); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:1228:24: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1228 | makeSelectedStatsFile(errorDistribution,pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp:340:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 340 | chooseParams(r_options, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1621:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1621 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:131:16: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2087:9: required from ‘int seqan::mapSingleReads(TMatches&, TGenomeSet&, const TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2087 | TIndex swiftIndex(readSet, shape); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2208:24: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TCounts&, RazerSOptions&, const TShape&, Swift) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TCounts = int; TSpec = RazerSSpec; TShape = Shape, UngappedShape<0> >; TSwiftSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2208 | return mapSingleReads(matches, genomeSet, readSet, cnts, options, shape, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:2297:19: required from ‘int seqan::mapReads(TMatches&, TGenomeSet&, TReadSet&, TReadRegions&, TCounts&, RazerSOptions&) [with TMatches = String >; TGenomeSet = StringSet, Alloc<> > >; TReadSet = StringSet >, Owner > >; TReadRegions = int; TCounts = int; TSpec = RazerSSpec]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2297 | return mapReads(matches, genomeSet, readSet, cnts, options, ungapped, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:830:13: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 830 | mapReads(matches, testGenome, testReads,dummy, dummy, razersOptions); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:1228:24: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1228 | makeSelectedStatsFile(errorDistribution,pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/param_chooser.cpp:340:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 340 | chooseParams(r_options, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h: In function ‘void seqan::initPatterns(TStateString&, const TShape&, int, const TLogErrorDistr&, TDistance, bool) [with TStateString = String, float>, Alloc<> >; TShape = String >; TLogErrorDistr = String; TDistance = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:636:41: warning: this statement may fall through [-Wimplicit-fallthrough=] 636 | ++del; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:638:33: note: here 638 | case SEQAN_INSERT: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:656:41: warning: this statement may fall through [-Wimplicit-fallthrough=] 656 | ++del; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:658:33: note: here 658 | case SEQAN_INSERT: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h: In function ‘void seqan::initPatterns(TStateString&, const TShape&, int, const TLogErrorDistr&, TDistance, bool) [with TStateString = String, float>, Alloc<> >; TShape = String >; TLogErrorDistr = String; TDistance = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:636:41: warning: this statement may fall through [-Wimplicit-fallthrough=] 636 | ++del; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:638:33: note: here 638 | case SEQAN_INSERT: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:656:41: warning: this statement may fall through [-Wimplicit-fallthrough=] 656 | ++del; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:658:33: note: here 658 | case SEQAN_INSERT: | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 69%] Linking CXX executable ../../../bin/param_chooser cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/param_chooser && /usr/bin/cmake -E cmake_link_script CMakeFiles/param_chooser.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/param_chooser.dir/param_chooser.cpp.o -o ../../../bin/param_chooser -lrt make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 69%] Built target param_chooser make -f extras/apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build.make extras/apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/param_chooser /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build.make extras/apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 70%] Building CXX object extras/apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/test_param_chooser.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/param_chooser && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/test_param_chooser.cpp.o -MF CMakeFiles/test_funcs_param_chooser.dir/test_param_chooser.cpp.o.d -o CMakeFiles/test_funcs_param_chooser.dir/test_param_chooser.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/test_param_chooser.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/test_param_chooser.cpp:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/sstream:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/test_param_chooser.cpp:42: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/fai_index.h:40, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:83, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:33, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/test_param_chooser.cpp:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:62, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:29, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:34: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:45:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:54:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:63:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 63 | struct filterI3 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:401:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 401 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:507:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 507 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:78: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:42:48: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public ::std::binary_function < PageBucket, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:57:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:257:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 257 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:372:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 372 | struct insertBucket : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_set.h:373:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:404:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 404 | public::std::binary_function // functor for operator> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:744:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 744 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:760:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 760 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:80: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:854:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 854 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:902:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 902 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:970:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 970 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1039:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1039 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1073:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1073 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1121:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1121 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2093:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2093 | struct _qgramComp : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2112:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2112 | public ::std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:46:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 46 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:85:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 85 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:96: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:98:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 98 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:112:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 112 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:127:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:144:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:154:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:99: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:110:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 110 | public ::std::binary_function < SkewDCStream, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:143:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 143 | public ::std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:100: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:99:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 99 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:118:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:132:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 132 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:154:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:175:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 175 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:185:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 185 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:103: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:57:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:97:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 97 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:141:29: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:109: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:59:42: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:164:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, KasaiOriginal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:312:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 312 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:313:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 313 | LCP[isa - 1] = h; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:379:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 379 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:380:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 380 | LCP[i] = h | mark; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const StringSet&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:483:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 483 | for(TSize hMax = _min(getValueI2((TPair)dec), n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:484:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 484 | LCP[i] = h | mark; | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:113: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h:144:50: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:585:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 585 | public ::std::binary_function< Pair, Pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:128: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In function ‘void seqan::_storeWotdChildren(Index > >&, TSize, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:504:27: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 504 | } else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:506:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 506 | for (TDirSize d = index.sentinelBound - index.sentinelOcc; d != index.sentinelBound; ++d) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:136: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h:149:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 149 | struct RepeatLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:157: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h: In function ‘typename seqan::Iterator >::Type seqan::_upperBoundLcpe(TText&, TSA&, SearchTreeIterator, TQuery&, TDiff_, TDiff_)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1498:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1498 | for(; i && ordEqual(*t, convert(*q)); --i, ++t, ++q) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1501 | if (q == qEnd || t == tEnd || !ordGreater(*t, convert(*q))) { | ^~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:712:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 712 | struct LessRNoGPos : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:740:47: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 740 | struct LessRNoGEndPos : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:766:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 766 | struct LessErrors : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:784:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 784 | struct LessSplicedScore : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:806:45: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 806 | struct LessSplicedScoreGPos : public ::std::binary_function < TReadMatch, TReadMatch, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h: In function ‘int seqan::qualityDistributionFromPrbFile(TFile&, TDistribution&, ParamChooserOptions&)’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:198:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 198 | if (skipWhitespaces(reader) != 0) | ^~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:201:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 201 | int kickout = 0; | ^~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h: In function ‘int seqan::qualityDistributionFromFastQIntFile(TFile&, TDistribution&, ParamChooserOptions&)’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:373:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 373 | if (pm_options.verbose) | ^~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:376:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 376 | resize(avg,pm_options.totalN,(TFloat)0.0); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h: In function ‘bool seqan::parseGappedParams(RazerSOptions&, TFile&, ParamChooserOptions&)’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:934:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 934 | if (value(reader) == 'e') | ^~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 938 | bool atLeastOneFound = false; | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/test_param_chooser.cpp:44: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = unsigned int; TExpand = TagGenerous_; typename Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45: required from ‘static typename seqan::Size::Type seqan::_Resize_String::resize_(T&, typename seqan::Size::Type) [with T = seqan::String, seqan::Alloc<> >; TExpand = seqan::Tag; typename seqan::Size::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: 1887 | TSize new_capacity = reserve(me, new_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50: required from ‘typename seqan::Size >::Type seqan::resize(String&, TSize, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long int; TExpand = TagGenerous_; typename Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: 1952 | return _Resize_String >::resize_(me, new_length); /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18: required from ‘typename seqan::Size::Type seqan::resize(T&, TSize) [with T = String, Alloc<> >; TSize = long int; typename Size::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: 2143 | return resize(me, new_length, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/file_format_mmap.h:793:9: required from ‘void seqan::assignSeq(TSeq&, const TFastaSeq&, Fastq) [with TSeq = String, Alloc<> >; TFastaSeq = Segment >, InfixSegment>; Fastq = Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: 793 | resize(dst, itEnd - it); /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: | ~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/file_format_mmap.h:1423:13: required from ‘void seqan::assignSeq(TSeq&, const TFileSeq&, const TagSelector&) [with TSeq = String, Alloc<> >; TFileSeq = Segment >, InfixSegment>; TTagList = TagList, TagList, TagList > > >]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: 1423 | assignSeq(dst, seq, TFormatTag()); /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/razers.h:620:11: required from here /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: 620 | assignSeq(firstRead, multiFasta[0], format); // read the first sequence /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser/../../../core/apps/splazers/paramChooser.h:938:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 70%] Linking CXX executable ../../../bin/test_funcs_param_chooser cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/param_chooser && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_funcs_param_chooser.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/test_funcs_param_chooser.dir/test_param_chooser.cpp.o -o ../../../bin/test_funcs_param_chooser make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 70%] Built target test_funcs_param_chooser make -f extras/apps/razers3/CMakeFiles/razers3.dir/build.make extras/apps/razers3/CMakeFiles/razers3.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3 /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/razers3 /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/razers3/CMakeFiles/razers3.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/razers3/CMakeFiles/razers3.dir/build.make extras/apps/razers3/CMakeFiles/razers3.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 70%] Building CXX object extras/apps/razers3/CMakeFiles/razers3.dir/razers.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/razers3 && /usr/bin/g++ -DSEQAN_DATE=\"\" -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -std=c++11 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/razers3/CMakeFiles/razers3.dir/razers.cpp.o -MF CMakeFiles/razers3.dir/razers.cpp.o.d -o CMakeFiles/razers3.dir/razers.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:57: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:63: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:62, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:33, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:45:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:54:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:63:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 63 | struct filterI3 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:401:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 401 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:507:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 507 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:78: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:42:48: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public ::std::binary_function < PageBucket, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:57:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:257:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 257 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:372:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 372 | struct insertBucket : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_set.h:373:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:404:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 404 | public::std::binary_function // functor for operator> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:744:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 744 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:760:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 760 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:80: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:854:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 854 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:902:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 902 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:970:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 970 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1039:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1039 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1073:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1073 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1121:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1121 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2093:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2093 | struct _qgramComp : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2112:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2112 | public ::std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:46:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 46 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:85:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 85 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:96: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:98:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 98 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:112:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 112 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:127:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:144:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:154:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:99: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:110:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 110 | public ::std::binary_function < SkewDCStream, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:143:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 143 | public ::std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:100: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:99:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 99 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:118:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:132:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 132 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:154:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:175:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 175 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:185:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 185 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:103: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:57:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:97:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 97 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:141:29: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:109: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:59:42: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:164:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, KasaiOriginal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:312:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 312 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:313:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 313 | LCP[isa - 1] = h; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:379:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 379 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:380:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 380 | LCP[i] = h | mark; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const StringSet&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:483:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 483 | for(TSize hMax = _min(getValueI2((TPair)dec), n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:484:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 484 | LCP[i] = h | mark; | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:113: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h:144:50: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:585:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 585 | public ::std::binary_function< Pair, Pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:128: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In function ‘void seqan::_storeWotdChildren(Index > >&, TSize, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:504:27: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 504 | } else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:506:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 506 | for (TDirSize d = index.sentinelBound - index.sentinelOcc; d != index.sentinelBound; ++d) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:136: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h:149:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 149 | struct RepeatLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:157: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h: In function ‘typename seqan::Iterator >::Type seqan::_upperBoundLcpe(TText&, TSA&, SearchTreeIterator, TQuery&, TDiff_, TDiff_)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1498:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1498 | for(; i && ordEqual(*t, convert(*q)); --i, ++t, ++q) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1501 | if (q == qEnd || t == tEnd || !ordGreater(*t, convert(*q))) { | ^~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:845:17: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 845 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:862:17: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 862 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:896:17: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 896 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:934:17: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 934 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:968:17: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 968 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:1009:17: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1009 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:1046:17: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1046 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:1087:17: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1087 | public std::binary_function::Type, typename Value::Type, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:1130:17: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1130 | public std::binary_function::Type, typename Value::Type, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:1174:17: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1174 | public std::binary_function::Type, typename Value::Type, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:1218:17: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1218 | public std::binary_function::Type, typename Value::Type, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:75: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:127:17: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::binary_function::Type, typename Value::Type, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:83: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:264:17: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 264 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:320:17: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 320 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:365:17: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 365 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:48: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h: In instantiation of ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazerSMode = RazerSMode; CharString = String >]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1309:27: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSLocal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_; CharString = String >]’ /usr/include/c++/14/bits/stl_function.h:131:12: note: 1309 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1353:31: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /usr/include/c++/14/bits/stl_function.h:131:12: note: 1353 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:258:20: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /usr/include/c++/14/bits/stl_function.h:131:12: note: 258 | dumpMatches(store, stats, readFileNames[0], options); /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /usr/include/c++/14/bits/stl_function.h:131:12: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:101:32: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 101 | #define SEQAN_DO_PRAGMA(x) _Pragma(#x) | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:102:33: note: in expansion of macro ‘SEQAN_DO_PRAGMA’ 102 | #define SEQAN_OMP_PRAGMA(x) SEQAN_DO_PRAGMA(omp x) | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:697:13: note: in expansion of macro ‘SEQAN_OMP_PRAGMA’ 697 | SEQAN_OMP_PRAGMA(parallel for private (intBuf) firstprivate(align)) | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:89: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h: In instantiation of ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazerSMode = RazerSMode; CharString = String >]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1312:27: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSLocal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1312 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1353:31: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1353 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:258:20: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 258 | dumpMatches(store, stats, readFileNames[0], options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:101:32: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 101 | #define SEQAN_DO_PRAGMA(x) _Pragma(#x) | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:102:33: note: in expansion of macro ‘SEQAN_DO_PRAGMA’ 102 | #define SEQAN_OMP_PRAGMA(x) SEQAN_DO_PRAGMA(omp x) | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:697:13: note: in expansion of macro ‘SEQAN_OMP_PRAGMA’ 697 | SEQAN_OMP_PRAGMA(parallel for private (intBuf) firstprivate(align)) | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h: In instantiation of ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazerSMode = RazerSMode, NMatchesNone_>; CharString = String >]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1315:27: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSLocal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1315 | return dumpMatches(store, stats, readFName, options, RazerSMode, TMatchNPolicy>()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1353:31: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1353 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:258:20: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 258 | dumpMatches(store, stats, readFileNames[0], options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:101:32: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 101 | #define SEQAN_DO_PRAGMA(x) _Pragma(#x) | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:102:33: note: in expansion of macro ‘SEQAN_DO_PRAGMA’ 102 | #define SEQAN_OMP_PRAGMA(x) SEQAN_DO_PRAGMA(omp x) | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:697:13: note: in expansion of macro ‘SEQAN_OMP_PRAGMA’ 697 | SEQAN_OMP_PRAGMA(parallel for private (intBuf) firstprivate(align)) | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h: In instantiation of ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazerSMode = RazerSMode; CharString = String >]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1309:27: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSPrefix; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1309 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1356:31: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1356 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:258:20: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 258 | dumpMatches(store, stats, readFileNames[0], options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:101:32: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 101 | #define SEQAN_DO_PRAGMA(x) _Pragma(#x) | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:102:33: note: in expansion of macro ‘SEQAN_DO_PRAGMA’ 102 | #define SEQAN_OMP_PRAGMA(x) SEQAN_DO_PRAGMA(omp x) | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:697:13: note: in expansion of macro ‘SEQAN_OMP_PRAGMA’ 697 | SEQAN_OMP_PRAGMA(parallel for private (intBuf) firstprivate(align)) | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h: In instantiation of ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazerSMode = RazerSMode; CharString = String >]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1312:27: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSPrefix; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1312 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1356:31: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1356 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:258:20: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 258 | dumpMatches(store, stats, readFileNames[0], options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:101:32: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 101 | #define SEQAN_DO_PRAGMA(x) _Pragma(#x) | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:102:33: note: in expansion of macro ‘SEQAN_DO_PRAGMA’ 102 | #define SEQAN_OMP_PRAGMA(x) SEQAN_DO_PRAGMA(omp x) | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:697:13: note: in expansion of macro ‘SEQAN_OMP_PRAGMA’ 697 | SEQAN_OMP_PRAGMA(parallel for private (intBuf) firstprivate(align)) | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h: In instantiation of ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazerSMode = RazerSMode, NMatchesNone_>; CharString = String >]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1315:27: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSPrefix; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1315 | return dumpMatches(store, stats, readFName, options, RazerSMode, TMatchNPolicy>()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1356:31: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1356 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:258:20: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 258 | dumpMatches(store, stats, readFileNames[0], options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:101:32: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 101 | #define SEQAN_DO_PRAGMA(x) _Pragma(#x) | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:102:33: note: in expansion of macro ‘SEQAN_DO_PRAGMA’ 102 | #define SEQAN_OMP_PRAGMA(x) SEQAN_DO_PRAGMA(omp x) | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:697:13: note: in expansion of macro ‘SEQAN_OMP_PRAGMA’ 697 | SEQAN_OMP_PRAGMA(parallel for private (intBuf) firstprivate(align)) | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h: In instantiation of ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazerSMode = RazerSMode; CharString = String >]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1309:27: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1309 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1359:31: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1359 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:258:20: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 258 | dumpMatches(store, stats, readFileNames[0], options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:101:32: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 101 | #define SEQAN_DO_PRAGMA(x) _Pragma(#x) | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:102:33: note: in expansion of macro ‘SEQAN_DO_PRAGMA’ 102 | #define SEQAN_OMP_PRAGMA(x) SEQAN_DO_PRAGMA(omp x) | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:697:13: note: in expansion of macro ‘SEQAN_OMP_PRAGMA’ 697 | SEQAN_OMP_PRAGMA(parallel for private (intBuf) firstprivate(align)) | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h: In instantiation of ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazerSMode = RazerSMode; CharString = String >]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1312:27: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1312 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1359:31: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1359 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:258:20: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 258 | dumpMatches(store, stats, readFileNames[0], options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:101:32: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 101 | #define SEQAN_DO_PRAGMA(x) _Pragma(#x) | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:102:33: note: in expansion of macro ‘SEQAN_DO_PRAGMA’ 102 | #define SEQAN_OMP_PRAGMA(x) SEQAN_DO_PRAGMA(omp x) | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:697:13: note: in expansion of macro ‘SEQAN_OMP_PRAGMA’ 697 | SEQAN_OMP_PRAGMA(parallel for private (intBuf) firstprivate(align)) | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h: In instantiation of ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazerSMode = RazerSMode, NMatchesNone_>; CharString = String >]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1315:27: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1315 | return dumpMatches(store, stats, readFName, options, RazerSMode, TMatchNPolicy>()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1359:31: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1359 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:258:20: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 258 | dumpMatches(store, stats, readFileNames[0], options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:101:32: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 101 | #define SEQAN_DO_PRAGMA(x) _Pragma(#x) | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:102:33: note: in expansion of macro ‘SEQAN_DO_PRAGMA’ 102 | #define SEQAN_OMP_PRAGMA(x) SEQAN_DO_PRAGMA(omp x) | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:697:13: note: in expansion of macro ‘SEQAN_OMP_PRAGMA’ 697 | SEQAN_OMP_PRAGMA(parallel for private (intBuf) firstprivate(align)) | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h: In instantiation of ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazerSMode = RazerSMode; CharString = String >]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1309:27: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSLocal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesNone_; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1309 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1364:31: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1364 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:258:20: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 258 | dumpMatches(store, stats, readFileNames[0], options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:101:32: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 101 | #define SEQAN_DO_PRAGMA(x) _Pragma(#x) | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:102:33: note: in expansion of macro ‘SEQAN_DO_PRAGMA’ 102 | #define SEQAN_OMP_PRAGMA(x) SEQAN_DO_PRAGMA(omp x) | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:697:13: note: in expansion of macro ‘SEQAN_OMP_PRAGMA’ 697 | SEQAN_OMP_PRAGMA(parallel for private (intBuf) firstprivate(align)) | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h: In instantiation of ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazerSMode = RazerSMode; CharString = String >]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1312:27: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSLocal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesNone_; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1312 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1364:31: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1364 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:258:20: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 258 | dumpMatches(store, stats, readFileNames[0], options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:101:32: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 101 | #define SEQAN_DO_PRAGMA(x) _Pragma(#x) | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:102:33: note: in expansion of macro ‘SEQAN_DO_PRAGMA’ 102 | #define SEQAN_OMP_PRAGMA(x) SEQAN_DO_PRAGMA(omp x) | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:697:13: note: in expansion of macro ‘SEQAN_OMP_PRAGMA’ 697 | SEQAN_OMP_PRAGMA(parallel for private (intBuf) firstprivate(align)) | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h: In instantiation of ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazerSMode = RazerSMode, NMatchesNone_>; CharString = String >]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1315:27: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSLocal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesNone_; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1315 | return dumpMatches(store, stats, readFName, options, RazerSMode, TMatchNPolicy>()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1364:31: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1364 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:258:20: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 258 | dumpMatches(store, stats, readFileNames[0], options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:101:32: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 101 | #define SEQAN_DO_PRAGMA(x) _Pragma(#x) | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:102:33: note: in expansion of macro ‘SEQAN_DO_PRAGMA’ 102 | #define SEQAN_OMP_PRAGMA(x) SEQAN_DO_PRAGMA(omp x) | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:697:13: note: in expansion of macro ‘SEQAN_OMP_PRAGMA’ 697 | SEQAN_OMP_PRAGMA(parallel for private (intBuf) firstprivate(align)) | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h: In instantiation of ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazerSMode = RazerSMode; CharString = String >]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1309:27: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSPrefix; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesNone_; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1309 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1367:31: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1367 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:258:20: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 258 | dumpMatches(store, stats, readFileNames[0], options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:101:32: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 101 | #define SEQAN_DO_PRAGMA(x) _Pragma(#x) | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:102:33: note: in expansion of macro ‘SEQAN_DO_PRAGMA’ 102 | #define SEQAN_OMP_PRAGMA(x) SEQAN_DO_PRAGMA(omp x) | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:697:13: note: in expansion of macro ‘SEQAN_OMP_PRAGMA’ 697 | SEQAN_OMP_PRAGMA(parallel for private (intBuf) firstprivate(align)) | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h: In instantiation of ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazerSMode = RazerSMode; CharString = String >]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1312:27: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSPrefix; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesNone_; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1312 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1367:31: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1367 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:258:20: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 258 | dumpMatches(store, stats, readFileNames[0], options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:101:32: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 101 | #define SEQAN_DO_PRAGMA(x) _Pragma(#x) | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:102:33: note: in expansion of macro ‘SEQAN_DO_PRAGMA’ 102 | #define SEQAN_OMP_PRAGMA(x) SEQAN_DO_PRAGMA(omp x) | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:697:13: note: in expansion of macro ‘SEQAN_OMP_PRAGMA’ 697 | SEQAN_OMP_PRAGMA(parallel for private (intBuf) firstprivate(align)) | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h: In instantiation of ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazerSMode = RazerSMode, NMatchesNone_>; CharString = String >]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1315:27: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSPrefix; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesNone_; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1315 | return dumpMatches(store, stats, readFName, options, RazerSMode, TMatchNPolicy>()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1367:31: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1367 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:258:20: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 258 | dumpMatches(store, stats, readFileNames[0], options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:101:32: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 101 | #define SEQAN_DO_PRAGMA(x) _Pragma(#x) | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:102:33: note: in expansion of macro ‘SEQAN_DO_PRAGMA’ 102 | #define SEQAN_OMP_PRAGMA(x) SEQAN_DO_PRAGMA(omp x) | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:697:13: note: in expansion of macro ‘SEQAN_OMP_PRAGMA’ 697 | SEQAN_OMP_PRAGMA(parallel for private (intBuf) firstprivate(align)) | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h: In instantiation of ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazerSMode = RazerSMode; CharString = String >]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1309:27: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesNone_; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1309 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1370:31: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1370 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:258:20: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 258 | dumpMatches(store, stats, readFileNames[0], options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:101:32: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 101 | #define SEQAN_DO_PRAGMA(x) _Pragma(#x) | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:102:33: note: in expansion of macro ‘SEQAN_DO_PRAGMA’ 102 | #define SEQAN_OMP_PRAGMA(x) SEQAN_DO_PRAGMA(omp x) | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:697:13: note: in expansion of macro ‘SEQAN_OMP_PRAGMA’ 697 | SEQAN_OMP_PRAGMA(parallel for private (intBuf) firstprivate(align)) | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h: In instantiation of ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazerSMode = RazerSMode; CharString = String >]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1312:27: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesNone_; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1312 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1370:31: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1370 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:258:20: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 258 | dumpMatches(store, stats, readFileNames[0], options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:101:32: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 101 | #define SEQAN_DO_PRAGMA(x) _Pragma(#x) | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:102:33: note: in expansion of macro ‘SEQAN_DO_PRAGMA’ 102 | #define SEQAN_OMP_PRAGMA(x) SEQAN_DO_PRAGMA(omp x) | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:697:13: note: in expansion of macro ‘SEQAN_OMP_PRAGMA’ 697 | SEQAN_OMP_PRAGMA(parallel for private (intBuf) firstprivate(align)) | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h: In instantiation of ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazerSMode = RazerSMode, NMatchesNone_>; CharString = String >]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1315:27: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesNone_; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1315 | return dumpMatches(store, stats, readFName, options, RazerSMode, TMatchNPolicy>()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1370:31: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1370 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:258:20: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 258 | dumpMatches(store, stats, readFileNames[0], options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:101:32: warning: implicitly-declared ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >::Align(const seqan::Align, seqan::Alloc<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 101 | #define SEQAN_DO_PRAGMA(x) _Pragma(#x) | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/parallel/parallel_macros.h:102:33: note: in expansion of macro ‘SEQAN_DO_PRAGMA’ 102 | #define SEQAN_OMP_PRAGMA(x) SEQAN_DO_PRAGMA(omp x) | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:697:13: note: in expansion of macro ‘SEQAN_OMP_PRAGMA’ 697 | SEQAN_OMP_PRAGMA(parallel for private (intBuf) firstprivate(align)) | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align, seqan::Alloc<> >, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_iterator.h:65, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:86, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:600:17: required from ‘typename seqan::Iterator::Type>::Type seqan::begin(const T&) [with T = Segment >, InfixSegment>; typename Iterator::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 600 | return begin(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1013:50: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam, const TAlignFunctor&) [with TFile = std::basic_ofstream; TSpec = MyFragStoreConfig; TConfig = FragmentStoreConfig; TAlignFunctor = FunctorGlobalEditDistAlign; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1013 | for (TReadNameIterator it = begin(store.readNameStore[readId]); it != end(store.readNameStore[readId]); ++it) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1224:33: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazerSMode = RazerSMode; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1224 | _writeAlignments(file, store, Sam(), FunctorGlobalEditDistAlign()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1309:27: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSLocal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1309 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1353:31: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1353 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:258:20: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 258 | dumpMatches(store, stats, readFileNames[0], options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:147:15: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 147 | : data_container(other_.data_container), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:93, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:61: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:600:17: required from ‘typename seqan::Iterator::Type>::Type seqan::begin(const T&) [with T = Segment >, InfixSegment>; typename Iterator::Type>::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 600 | return begin(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io.h:971:31: required from ‘int seqan::write(TFile&, FragmentStore&, Amos) [with TFile = std::basic_ofstream; TSpec = MyFragStoreConfig; TConfig = FragmentStoreConfig; Amos = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 971 | TSeqIter seqIt = begin(value(fragStore.readSeqStore, idCount)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1232:14: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazerSMode = RazerSMode; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1232 | write(file, store, Amos()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1309:27: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSLocal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1309 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1353:31: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1353 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:258:20: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 258 | dumpMatches(store, stats, readFileNames[0], options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:147:15: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 147 | : data_container(other_.data_container), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:85: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h: In instantiation of ‘void seqan::initializeThreadLocalStoragesPaired(TThreadLocalStorages&, TFragmentStore&, const TSplitters&, TShape&, TOptions&) [with TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TFragmentStore = FragmentStore; TSplitters = String >; TShape = const Shape, OneGappedShape>; TOptions = RazerSOptions<>]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1463:40: required from ‘int seqan::_mapMatePairReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Pigeonhole]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1463 | initializeThreadLocalStoragesPaired(threadLocalStorages, store, splitters, shape, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1662:41: required from ‘int seqan::_mapMatePairReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1662 | return _mapMatePairReadsParallel(store, cnts, options, Shape(), mode, Pigeonhole()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:358:19: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 358 | tls.shape = shape; | ~~~~~~~~~~^~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:77: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:399:22: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 399 | indexL.shape = shape; | ~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:413:22: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 413 | indexR.shape = shape; | ~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:33: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h: In instantiation of ‘void seqan::initializeThreadLocalStoragesSingle(TThreadLocalStorages&, TFragmentStore&, const TSplitters&, TShape&, TOptions&) [with TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TFragmentStore = FragmentStore; TSplitters = String >; TShape = const Shape, OneGappedShape>; TOptions = RazerSOptions<>]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1014:40: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Pigeonhole]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1014 | initializeThreadLocalStoragesSingle(threadLocalStorages, store, splitters, shape, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1208:39: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1208 | return _mapSingleReadsParallel(store, cnts, options, Shape(), mode, Pigeonhole()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:841:19: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 841 | tls.shape = shape; | ~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:868:21: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 868 | index.shape = shape; | ~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h: In instantiation of ‘void seqan::initializeThreadLocalStoragesPaired(TThreadLocalStorages&, TFragmentStore&, const TSplitters&, TShape&, TOptions&) [with TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TFragmentStore = FragmentStore; TSplitters = String >; TShape = const Shape, GappedShape > >; TOptions = RazerSOptions<>]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1463:40: required from ‘int seqan::_mapMatePairReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1463 | initializeThreadLocalStoragesPaired(threadLocalStorages, store, splitters, shape, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1657:41: required from ‘int seqan::_mapMatePairReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1657 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:358:19: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 358 | tls.shape = shape; | ~~~~~~~~~~^~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:76: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:399:22: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 399 | indexL.shape = shape; | ~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:413:22: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 413 | indexR.shape = shape; | ~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h: In instantiation of ‘void seqan::initializeThreadLocalStoragesSingle(TThreadLocalStorages&, TFragmentStore&, const TSplitters&, TShape&, TOptions&) [with TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TFragmentStore = FragmentStore; TSplitters = String >; TShape = const Shape, GappedShape > >; TOptions = RazerSOptions<>]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1014:40: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1014 | initializeThreadLocalStoragesSingle(threadLocalStorages, store, splitters, shape, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1203:39: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1203 | return _mapSingleReadsParallel(store, cnts, options, shape, mode, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:841:19: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 841 | tls.shape = shape; | ~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:868:21: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 868 | index.shape = shape; | ~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h: In instantiation of ‘void seqan::initializeThreadLocalStoragesPaired(TThreadLocalStorages&, TFragmentStore&, const TSplitters&, TShape&, TOptions&) [with TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TFragmentStore = FragmentStore; TSplitters = String >; TShape = const Shape, OneGappedShape>; TOptions = RazerSOptions<>]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1463:40: required from ‘int seqan::_mapMatePairReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Pigeonhole]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1463 | initializeThreadLocalStoragesPaired(threadLocalStorages, store, splitters, shape, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1662:41: required from ‘int seqan::_mapMatePairReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1662 | return _mapMatePairReadsParallel(store, cnts, options, Shape(), mode, Pigeonhole()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3431:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3431 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:358:19: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 358 | tls.shape = shape; | ~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:399:22: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 399 | indexL.shape = shape; | ~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:413:22: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 413 | indexR.shape = shape; | ~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h: In instantiation of ‘void seqan::initializeThreadLocalStoragesSingle(TThreadLocalStorages&, TFragmentStore&, const TSplitters&, TShape&, TOptions&) [with TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TFragmentStore = FragmentStore; TSplitters = String >; TShape = const Shape, OneGappedShape>; TOptions = RazerSOptions<>]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1014:40: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Pigeonhole]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1014 | initializeThreadLocalStoragesSingle(threadLocalStorages, store, splitters, shape, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1208:39: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1208 | return _mapSingleReadsParallel(store, cnts, options, Shape(), mode, Pigeonhole()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3431:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3431 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:841:19: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 841 | tls.shape = shape; | ~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:868:21: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 868 | index.shape = shape; | ~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h: In instantiation of ‘void seqan::initializeThreadLocalStoragesPaired(TThreadLocalStorages&, TFragmentStore&, const TSplitters&, TShape&, TOptions&) [with TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TFragmentStore = FragmentStore; TSplitters = String >; TShape = const Shape, GappedShape > >; TOptions = RazerSOptions<>]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1463:40: required from ‘int seqan::_mapMatePairReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1463 | initializeThreadLocalStoragesPaired(threadLocalStorages, store, splitters, shape, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1657:41: required from ‘int seqan::_mapMatePairReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1657 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3431:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3431 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:358:19: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 358 | tls.shape = shape; | ~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:399:22: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 399 | indexL.shape = shape; | ~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:413:22: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 413 | indexR.shape = shape; | ~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h: In instantiation of ‘void seqan::initializeThreadLocalStoragesSingle(TThreadLocalStorages&, TFragmentStore&, const TSplitters&, TShape&, TOptions&) [with TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TFragmentStore = FragmentStore; TSplitters = String >; TShape = const Shape, GappedShape > >; TOptions = RazerSOptions<>]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1014:40: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1014 | initializeThreadLocalStoragesSingle(threadLocalStorages, store, splitters, shape, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1203:39: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1203 | return _mapSingleReadsParallel(store, cnts, options, shape, mode, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3431:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3431 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:841:19: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 841 | tls.shape = shape; | ~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:868:21: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 868 | index.shape = shape; | ~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h: In instantiation of ‘void seqan::initializeThreadLocalStoragesPaired(TThreadLocalStorages&, TFragmentStore&, const TSplitters&, TShape&, TOptions&) [with TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TFragmentStore = FragmentStore; TSplitters = String >; TShape = const Shape, OneGappedShape>; TOptions = RazerSOptions<>]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1463:40: required from ‘int seqan::_mapMatePairReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_; TFilterSpec = Pigeonhole]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1463 | initializeThreadLocalStoragesPaired(threadLocalStorages, store, splitters, shape, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1662:41: required from ‘int seqan::_mapMatePairReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1662 | return _mapMatePairReadsParallel(store, cnts, options, Shape(), mode, Pigeonhole()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3443:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3443 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:358:19: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 358 | tls.shape = shape; | ~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:399:22: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 399 | indexL.shape = shape; | ~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:413:22: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 413 | indexR.shape = shape; | ~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h: In instantiation of ‘void seqan::initializeThreadLocalStoragesSingle(TThreadLocalStorages&, TFragmentStore&, const TSplitters&, TShape&, TOptions&) [with TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TFragmentStore = FragmentStore; TSplitters = String >; TShape = const Shape, OneGappedShape>; TOptions = RazerSOptions<>]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1014:40: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_; TFilterSpec = Pigeonhole]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1014 | initializeThreadLocalStoragesSingle(threadLocalStorages, store, splitters, shape, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1208:39: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1208 | return _mapSingleReadsParallel(store, cnts, options, Shape(), mode, Pigeonhole()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3443:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3443 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:841:19: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 841 | tls.shape = shape; | ~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:868:21: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 868 | index.shape = shape; | ~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h: In instantiation of ‘void seqan::initializeThreadLocalStoragesPaired(TThreadLocalStorages&, TFragmentStore&, const TSplitters&, TShape&, TOptions&) [with TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TFragmentStore = FragmentStore; TSplitters = String >; TShape = const Shape, GappedShape > >; TOptions = RazerSOptions<>]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1463:40: required from ‘int seqan::_mapMatePairReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1463 | initializeThreadLocalStoragesPaired(threadLocalStorages, store, splitters, shape, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1657:41: required from ‘int seqan::_mapMatePairReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1657 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3443:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3443 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:358:19: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 358 | tls.shape = shape; | ~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:399:22: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 399 | indexL.shape = shape; | ~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:413:22: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 413 | indexR.shape = shape; | ~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h: In instantiation of ‘void seqan::initializeThreadLocalStoragesSingle(TThreadLocalStorages&, TFragmentStore&, const TSplitters&, TShape&, TOptions&) [with TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TFragmentStore = FragmentStore; TSplitters = String >; TShape = const Shape, GappedShape > >; TOptions = RazerSOptions<>]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1014:40: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1014 | initializeThreadLocalStoragesSingle(threadLocalStorages, store, splitters, shape, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1203:39: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1203 | return _mapSingleReadsParallel(store, cnts, options, shape, mode, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3443:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3443 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:841:19: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 841 | tls.shape = shape; | ~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:868:21: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 868 | index.shape = shape; | ~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h: In instantiation of ‘void seqan::initializeThreadLocalStoragesPaired(TThreadLocalStorages&, TFragmentStore&, const TSplitters&, TShape&, TOptions&) [with TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TFragmentStore = FragmentStore; TSplitters = String >; TShape = const Shape, OneGappedShape>; TOptions = RazerSOptions<>]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1463:40: required from ‘int seqan::_mapMatePairReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_; TFilterSpec = Pigeonhole]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1463 | initializeThreadLocalStoragesPaired(threadLocalStorages, store, splitters, shape, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1662:41: required from ‘int seqan::_mapMatePairReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1662 | return _mapMatePairReadsParallel(store, cnts, options, Shape(), mode, Pigeonhole()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3452:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3452 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:358:19: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 358 | tls.shape = shape; | ~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:399:22: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 399 | indexL.shape = shape; | ~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:413:22: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 413 | indexR.shape = shape; | ~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h: In instantiation of ‘void seqan::initializeThreadLocalStoragesSingle(TThreadLocalStorages&, TFragmentStore&, const TSplitters&, TShape&, TOptions&) [with TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TFragmentStore = FragmentStore; TSplitters = String >; TShape = const Shape, OneGappedShape>; TOptions = RazerSOptions<>]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1014:40: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_; TFilterSpec = Pigeonhole]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1014 | initializeThreadLocalStoragesSingle(threadLocalStorages, store, splitters, shape, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1208:39: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1208 | return _mapSingleReadsParallel(store, cnts, options, Shape(), mode, Pigeonhole()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3452:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3452 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:841:19: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 841 | tls.shape = shape; | ~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:868:21: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 868 | index.shape = shape; | ~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h: In instantiation of ‘void seqan::initializeThreadLocalStoragesPaired(TThreadLocalStorages&, TFragmentStore&, const TSplitters&, TShape&, TOptions&) [with TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TFragmentStore = FragmentStore; TSplitters = String >; TShape = const Shape, GappedShape > >; TOptions = RazerSOptions<>]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1463:40: required from ‘int seqan::_mapMatePairReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1463 | initializeThreadLocalStoragesPaired(threadLocalStorages, store, splitters, shape, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1657:41: required from ‘int seqan::_mapMatePairReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1657 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3452:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3452 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:358:19: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 358 | tls.shape = shape; | ~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:399:22: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 399 | indexL.shape = shape; | ~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:413:22: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 413 | indexR.shape = shape; | ~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h: In instantiation of ‘void seqan::initializeThreadLocalStoragesSingle(TThreadLocalStorages&, TFragmentStore&, const TSplitters&, TShape&, TOptions&) [with TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TFragmentStore = FragmentStore; TSplitters = String >; TShape = const Shape, GappedShape > >; TOptions = RazerSOptions<>]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1014:40: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1014 | initializeThreadLocalStoragesSingle(threadLocalStorages, store, splitters, shape, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1203:39: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1203 | return _mapSingleReadsParallel(store, cnts, options, shape, mode, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3452:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3452 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:841:19: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 841 | tls.shape = shape; | ~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:868:21: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 868 | index.shape = shape; | ~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:600:17: required from ‘typename seqan::Iterator::Type>::Type seqan::begin(const T&) [with T = Segment >, InfixSegment>; typename Iterator::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 600 | return begin(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1013:50: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam, const TAlignFunctor&) [with TFile = std::basic_ofstream; TSpec = MyFragStoreConfig; TConfig = FragmentStoreConfig; TAlignFunctor = FunctorGlobalEditDistAlign; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1013 | for (TReadNameIterator it = begin(store.readNameStore[readId]); it != end(store.readNameStore[readId]); ++it) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1224:33: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazerSMode = RazerSMode; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1224 | _writeAlignments(file, store, Sam(), FunctorGlobalEditDistAlign()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1309:27: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSLocal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1309 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1353:31: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1353 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:258:20: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 258 | dumpMatches(store, stats, readFileNames[0], options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 541 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_endDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:850:23: required from ‘typename seqan::Iterator >::Type seqan::end(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 850 | return _endDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:832:15: required from ‘typename seqan::Iterator::Type>::Type seqan::end(const T&) [with T = Segment >, InfixSegment>; typename Iterator::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 832 | return end(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1013:90: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam, const TAlignFunctor&) [with TFile = std::basic_ofstream; TSpec = MyFragStoreConfig; TConfig = FragmentStoreConfig; TAlignFunctor = FunctorGlobalEditDistAlign; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1013 | for (TReadNameIterator it = begin(store.readNameStore[readId]); it != end(store.readNameStore[readId]); ++it) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1224:33: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazerSMode = RazerSMode; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1224 | _writeAlignments(file, store, Sam(), FunctorGlobalEditDistAlign()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1309:27: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSLocal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1309 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1353:31: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1353 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:258:20: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 258 | dumpMatches(store, stats, readFileNames[0], options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:777:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 777 | return TIterator(me, end(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:600:17: required from ‘typename seqan::Iterator::Type>::Type seqan::begin(const T&) [with T = Segment >, InfixSegment>; typename Iterator::Type>::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 600 | return begin(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io.h:971:31: required from ‘int seqan::write(TFile&, FragmentStore&, Amos) [with TFile = std::basic_ofstream; TSpec = MyFragStoreConfig; TConfig = FragmentStoreConfig; Amos = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 971 | TSeqIter seqIt = begin(value(fragStore.readSeqStore, idCount)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1232:14: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazerSMode = RazerSMode; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1232 | write(file, store, Amos()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1309:27: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSLocal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1309 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1353:31: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1353 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:258:20: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 258 | dumpMatches(store, stats, readFileNames[0], options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 541 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_endDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:850:23: required from ‘typename seqan::Iterator >::Type seqan::end(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 850 | return _endDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:832:15: required from ‘typename seqan::Iterator::Type>::Type seqan::end(const T&) [with T = Segment >, InfixSegment>; typename Iterator::Type>::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 832 | return end(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io.h:972:32: required from ‘int seqan::write(TFile&, FragmentStore&, Amos) [with TFile = std::basic_ofstream; TSpec = MyFragStoreConfig; TConfig = FragmentStoreConfig; Amos = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 972 | TSeqIter seqItEnd = end(value(fragStore.readSeqStore, idCount)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1232:14: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazerSMode = RazerSMode; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1232 | write(file, store, Amos()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1309:27: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSLocal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1309 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1353:31: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1353 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:258:20: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 258 | dumpMatches(store, stats, readFileNames[0], options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:777:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 777 | return TIterator(me, end(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h: In instantiation of ‘bool seqan::matchVerify(TMatchVerifier&, Segment, unsigned int, const TRead&, const RazerSMode&) [with TMatchVerifier = MatchVerifier, String, Alloc<> >, RazerSOptions<>, RazerSMode, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, String > >; TGenome = String >; TRead = Segment >, InfixSegment>; TMatchNPolicy = NMatchesAll_]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:792:40: required from ‘void seqan::_mapMatePairReads(TMatches&, FragmentStore&, unsigned int, Pattern&, Pattern&, TCounts&, char, TRazerSOptions&, const TRazerSMode&) [with TMatches = String, Alloc<> >; TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TFilterSpec = Swift > >; TCounts = String >; TRazerSOptions = RazerSOptions<>; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 792 | if (matchVerify(verifierL, infix(genome, ((*it).i2.beginPos >= 0) ? (TSignedGPos)(*it).i2.beginPos : (TSignedGPos)0, (TSignedGPos)(*it).i2.endPos), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 793 | leftReadId, readSetL[matePairId], mode)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:1114:30: required from ‘int seqan::_mapMatePairReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1114 | _mapMatePairReads(matches, store, contigId, filterPatternL, filterPatternR, cnts, 'F', options, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3247:33: required from ‘int seqan::_mapMatePairReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 3247 | return _mapMatePairReads(store, cnts, options, shape, mode, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3340:37: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 3340 | return _mapMatePairReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2155:18: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2155 | TGenomeInfix origInf(inf); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2238:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2238 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2239:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2239 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2341:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2341 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2342:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2342 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:34: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_pigeonhole.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSpec = void]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2785:21: required from ‘void seqan::_applyFilterOptions(Pattern >&, const TOptions&) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TPigeonholeSpec = void; TOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 2785 | _patternInit(filterPattern, options.errorRate); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:1087:24: required from ‘int seqan::_mapMatePairReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Pigeonhole]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1087 | _applyFilterOptions(filterPatternL, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3252:33: required from ‘int seqan::_mapMatePairReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3252 | return _mapMatePairReads(store, cnts, options, Shape(), mode, Pigeonhole()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3340:37: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3340 | return _mapMatePairReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_pigeonhole.h:462:35: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 462 | indexShape(host(pattern)) = pattern.shape; | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h: In instantiation of ‘bool seqan::matchVerify(TMatchVerifier&, Segment, unsigned int, const TRead&, const RazerSMode&) [with TMatchVerifier = MatchVerifier, String, Alloc<> >, RazerSOptions<>, RazerSMode, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, String > >; TGenome = String >; TRead = Segment >, InfixSegment>; TMatchNPolicy = NMatchesAll_]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:792:40: required from ‘void seqan::_mapMatePairReads(TMatches&, FragmentStore&, unsigned int, Pattern&, Pattern&, TCounts&, char, TRazerSOptions&, const TRazerSMode&) [with TMatches = String, Alloc<> >; TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TFilterSpec = Pigeonhole; TCounts = String >; TRazerSOptions = RazerSOptions<>; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 792 | if (matchVerify(verifierL, infix(genome, ((*it).i2.beginPos >= 0) ? (TSignedGPos)(*it).i2.beginPos : (TSignedGPos)0, (TSignedGPos)(*it).i2.endPos), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 793 | leftReadId, readSetL[matePairId], mode)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:1114:30: required from ‘int seqan::_mapMatePairReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Pigeonhole]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1114 | _mapMatePairReads(matches, store, contigId, filterPatternL, filterPatternR, cnts, 'F', options, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3252:33: required from ‘int seqan::_mapMatePairReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3252 | return _mapMatePairReads(store, cnts, options, Shape(), mode, Pigeonhole()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3340:37: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3340 | return _mapMatePairReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2155:18: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2155 | TGenomeInfix origInf(inf); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2238:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2238 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2239:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2239 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2341:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2341 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2342:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2342 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:162: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2896:17: required from ‘void seqan::_applyFilterOptions(Pattern >&, const TOptions&) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 2896 | _patternInit(filterPattern, options.errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:1087:24: required from ‘int seqan::_mapMatePairReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1087 | _applyFilterOptions(filterPatternL, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3247:33: required from ‘int seqan::_mapMatePairReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3247 | return _mapMatePairReads(store, cnts, options, shape, mode, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3340:37: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3340 | return _mapMatePairReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h: In instantiation of ‘bool seqan::matchVerify(TMatchVerifier&, Segment, unsigned int, const TRead&, const RazerSMode&) [with TMatchVerifier = MatchVerifier, String, Alloc<> >, RazerSOptions<>, RazerSMode, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, String > >; TGenome = String >; TRead = Segment >, InfixSegment>; TMatchNPolicy = NMatchesAll_]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:792:40: required from ‘void seqan::_mapMatePairReads(TMatches&, FragmentStore&, unsigned int, Pattern&, Pattern&, TCounts&, char, TRazerSOptions&, const TRazerSMode&) [with TMatches = String, Alloc<> >; TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TFilterSpec = Swift > >; TCounts = String >; TRazerSOptions = RazerSOptions<>; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 792 | if (matchVerify(verifierL, infix(genome, ((*it).i2.beginPos >= 0) ? (TSignedGPos)(*it).i2.beginPos : (TSignedGPos)0, (TSignedGPos)(*it).i2.endPos), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 793 | leftReadId, readSetL[matePairId], mode)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:1114:30: required from ‘int seqan::_mapMatePairReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1114 | _mapMatePairReads(matches, store, contigId, filterPatternL, filterPatternR, cnts, 'F', options, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3247:33: required from ‘int seqan::_mapMatePairReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3247 | return _mapMatePairReads(store, cnts, options, shape, mode, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3340:37: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3340 | return _mapMatePairReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2155:18: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2155 | TGenomeInfix origInf(inf); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2238:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2238 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2239:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2239 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2341:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2341 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2342:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2342 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_pigeonhole.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSpec = Hamming_]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2785:21: required from ‘void seqan::_applyFilterOptions(Pattern >&, const TOptions&) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TPigeonholeSpec = Hamming_; TOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 2785 | _patternInit(filterPattern, options.errorRate); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:1087:24: required from ‘int seqan::_mapMatePairReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Pigeonhole]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1087 | _applyFilterOptions(filterPatternL, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3252:33: required from ‘int seqan::_mapMatePairReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3252 | return _mapMatePairReads(store, cnts, options, Shape(), mode, Pigeonhole()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3340:37: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3340 | return _mapMatePairReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3431:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3431 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_pigeonhole.h:462:35: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 462 | indexShape(host(pattern)) = pattern.shape; | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2896:17: required from ‘void seqan::_applyFilterOptions(Pattern >&, const TOptions&) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2896 | _patternInit(filterPattern, options.errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:1087:24: required from ‘int seqan::_mapMatePairReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1087 | _applyFilterOptions(filterPatternL, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3247:33: required from ‘int seqan::_mapMatePairReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3247 | return _mapMatePairReads(store, cnts, options, shape, mode, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3340:37: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3340 | return _mapMatePairReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3431:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3431 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h: In instantiation of ‘bool seqan::matchVerify(TMatchVerifier&, Segment, unsigned int, const TRead&, const RazerSMode&) [with TMatchVerifier = MatchVerifier, String, Alloc<> >, RazerSOptions<>, RazerSMode, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, String > >; TGenome = String >; TRead = Segment >, InfixSegment>; TMatchNPolicy = NMatchesNone_]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:792:40: required from ‘void seqan::_mapMatePairReads(TMatches&, FragmentStore&, unsigned int, Pattern&, Pattern&, TCounts&, char, TRazerSOptions&, const TRazerSMode&) [with TMatches = String, Alloc<> >; TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TFilterSpec = Swift > >; TCounts = String >; TRazerSOptions = RazerSOptions<>; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 792 | if (matchVerify(verifierL, infix(genome, ((*it).i2.beginPos >= 0) ? (TSignedGPos)(*it).i2.beginPos : (TSignedGPos)0, (TSignedGPos)(*it).i2.endPos), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 793 | leftReadId, readSetL[matePairId], mode)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:1114:30: required from ‘int seqan::_mapMatePairReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1114 | _mapMatePairReads(matches, store, contigId, filterPatternL, filterPatternR, cnts, 'F', options, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3247:33: required from ‘int seqan::_mapMatePairReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3247 | return _mapMatePairReads(store, cnts, options, shape, mode, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3340:37: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3340 | return _mapMatePairReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3443:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3443 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2155:18: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2155 | TGenomeInfix origInf(inf); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2238:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2238 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2239:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2239 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2341:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2341 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2342:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2342 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h: In instantiation of ‘bool seqan::matchVerify(TMatchVerifier&, Segment, unsigned int, const TRead&, const RazerSMode&) [with TMatchVerifier = MatchVerifier, String, Alloc<> >, RazerSOptions<>, RazerSMode, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, String > >; TGenome = String >; TRead = Segment >, InfixSegment>; TMatchNPolicy = NMatchesNone_]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:792:40: required from ‘void seqan::_mapMatePairReads(TMatches&, FragmentStore&, unsigned int, Pattern&, Pattern&, TCounts&, char, TRazerSOptions&, const TRazerSMode&) [with TMatches = String, Alloc<> >; TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TFilterSpec = Pigeonhole; TCounts = String >; TRazerSOptions = RazerSOptions<>; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 792 | if (matchVerify(verifierL, infix(genome, ((*it).i2.beginPos >= 0) ? (TSignedGPos)(*it).i2.beginPos : (TSignedGPos)0, (TSignedGPos)(*it).i2.endPos), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 793 | leftReadId, readSetL[matePairId], mode)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:1114:30: required from ‘int seqan::_mapMatePairReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_; TFilterSpec = Pigeonhole]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1114 | _mapMatePairReads(matches, store, contigId, filterPatternL, filterPatternR, cnts, 'F', options, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3252:33: required from ‘int seqan::_mapMatePairReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3252 | return _mapMatePairReads(store, cnts, options, Shape(), mode, Pigeonhole()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3340:37: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3340 | return _mapMatePairReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3443:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3443 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2155:18: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2155 | TGenomeInfix origInf(inf); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2238:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2238 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2239:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2239 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2341:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2341 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2342:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2342 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h: In instantiation of ‘bool seqan::matchVerify(TMatchVerifier&, Segment, unsigned int, const TRead&, const RazerSMode&) [with TMatchVerifier = MatchVerifier, String, Alloc<> >, RazerSOptions<>, RazerSMode, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, String > >; TGenome = String >; TRead = Segment >, InfixSegment>; TMatchNPolicy = NMatchesNone_]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:792:40: required from ‘void seqan::_mapMatePairReads(TMatches&, FragmentStore&, unsigned int, Pattern&, Pattern&, TCounts&, char, TRazerSOptions&, const TRazerSMode&) [with TMatches = String, Alloc<> >; TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TFilterSpec = Swift > >; TCounts = String >; TRazerSOptions = RazerSOptions<>; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 792 | if (matchVerify(verifierL, infix(genome, ((*it).i2.beginPos >= 0) ? (TSignedGPos)(*it).i2.beginPos : (TSignedGPos)0, (TSignedGPos)(*it).i2.endPos), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 793 | leftReadId, readSetL[matePairId], mode)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:1114:30: required from ‘int seqan::_mapMatePairReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1114 | _mapMatePairReads(matches, store, contigId, filterPatternL, filterPatternR, cnts, 'F', options, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3247:33: required from ‘int seqan::_mapMatePairReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3247 | return _mapMatePairReads(store, cnts, options, shape, mode, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3340:37: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3340 | return _mapMatePairReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3443:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3443 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2155:18: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2155 | TGenomeInfix origInf(inf); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2238:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2238 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2239:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2239 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2341:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2341 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2342:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2342 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:52, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:32: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::container(Finder&) [with THaystack = Segment >, InfixSegment>; TSpec = Pigeonhole; typename Parameter_::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_pigeonhole.h:924:42: required from ‘bool seqan::find(Finder >&, Pattern >&, double) [with THaystack = Segment >, InfixSegment>; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 924 | pattern.finderLength = length(container(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:695:16: required from ‘void seqan::_mapMatePairReads(TMatches&, FragmentStore&, unsigned int, Pattern&, Pattern&, TCounts&, char, TRazerSOptions&, const TRazerSMode&) [with TMatches = String, Alloc<> >; TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TFilterSpec = Pigeonhole; TCounts = String >; TRazerSOptions = RazerSOptions<>; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 695 | while (find(filterFinderR, filterPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:1114:30: required from ‘int seqan::_mapMatePairReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Pigeonhole]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1114 | _mapMatePairReads(matches, store, contigId, filterPatternL, filterPatternR, cnts, 'F', options, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3252:33: required from ‘int seqan::_mapMatePairReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3252 | return _mapMatePairReads(store, cnts, options, Shape(), mode, Pigeonhole()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3340:37: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3340 | return _mapMatePairReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:793:42: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 793 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h: In instantiation of ‘bool seqan::matchVerify(TMatchVerifier&, Segment, unsigned int, const TRead&, const RazerSMode&) [with TMatchVerifier = MatchVerifier, String, Alloc<> >, RazerSOptions<>, RazerSMode, Pattern >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, String > >; TGenome = String >; TRead = Segment >, InfixSegment>; TMatchNPolicy = NMatchesAll_]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2979:24: required from ‘void seqan::_mapSingleReadsToContig(TMatches&, TFragmentStore&, unsigned int, Pattern&, TCounts&, char, TRazerSOptions&, const TRazerSMode&) [with TMatches = String, Alloc<> >; TFragmentStore = FragmentStore; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TFilterSpec = Swift > >; TCounts = String >; TRazerSOptions = RazerSOptions<>; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2979 | matchVerify(verifier, infix(filterFinder), verifier.m.readId, readSet[verifier.m.readId], mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3054:36: required from ‘int seqan::_mapSingleReads(FragmentStore&, TCounts&, RazerSOptions&, const RazerSMode&, TReadIndex&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TMatchNPolicy = NMatchesAll_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3054 | _mapSingleReadsToContig(matches, store, contigId, filterPattern, cnts, 'F', options, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3146:27: required from ‘int seqan::_mapSingleReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3146 | return _mapSingleReads(store, cnts, options, mode, swiftIndex, TFilterSpec()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3216:31: required from ‘int seqan::_mapSingleReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3216 | return _mapSingleReads(store, cnts, options, shape, mode, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3343:31: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3343 | return _mapSingleReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2155:18: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2155 | TGenomeInfix origInf(inf); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2238:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2238 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2239:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2239 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2341:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2341 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2342:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2342 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_pigeonhole.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSpec = void]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2785:21: required from ‘void seqan::_applyFilterOptions(Pattern >&, const TOptions&) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TPigeonholeSpec = void; TOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 2785 | _patternInit(filterPattern, options.errorRate); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3026:24: required from ‘int seqan::_mapSingleReads(FragmentStore&, TCounts&, RazerSOptions&, const RazerSMode&, TReadIndex&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TMatchNPolicy = NMatchesAll_; TFilterSpec = Pigeonhole]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3026 | _applyFilterOptions(filterPattern, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3146:27: required from ‘int seqan::_mapSingleReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Pigeonhole]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3146 | return _mapSingleReads(store, cnts, options, mode, swiftIndex, TFilterSpec()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3221:31: required from ‘int seqan::_mapSingleReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3221 | return _mapSingleReads(store, cnts, options, Shape(), mode, Pigeonhole()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3343:31: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3343 | return _mapSingleReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_pigeonhole.h:462:35: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 462 | indexShape(host(pattern)) = pattern.shape; | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h: In instantiation of ‘bool seqan::matchVerify(TMatchVerifier&, Segment, unsigned int, const TRead&, const RazerSMode&) [with TMatchVerifier = MatchVerifier, String, Alloc<> >, RazerSOptions<>, RazerSMode, Pattern >, Owner > >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, String > >; TGenome = String >; TRead = Segment >, InfixSegment>; TMatchNPolicy = NMatchesAll_]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2979:24: required from ‘void seqan::_mapSingleReadsToContig(TMatches&, TFragmentStore&, unsigned int, Pattern&, TCounts&, char, TRazerSOptions&, const TRazerSMode&) [with TMatches = String, Alloc<> >; TFragmentStore = FragmentStore; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TFilterSpec = Pigeonhole; TCounts = String >; TRazerSOptions = RazerSOptions<>; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2979 | matchVerify(verifier, infix(filterFinder), verifier.m.readId, readSet[verifier.m.readId], mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3054:36: required from ‘int seqan::_mapSingleReads(FragmentStore&, TCounts&, RazerSOptions&, const RazerSMode&, TReadIndex&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TMatchNPolicy = NMatchesAll_; TFilterSpec = Pigeonhole]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3054 | _mapSingleReadsToContig(matches, store, contigId, filterPattern, cnts, 'F', options, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3146:27: required from ‘int seqan::_mapSingleReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Pigeonhole]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3146 | return _mapSingleReads(store, cnts, options, mode, swiftIndex, TFilterSpec()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3221:31: required from ‘int seqan::_mapSingleReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3221 | return _mapSingleReads(store, cnts, options, Shape(), mode, Pigeonhole()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3343:31: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3343 | return _mapSingleReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2155:18: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2155 | TGenomeInfix origInf(inf); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2238:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2238 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2239:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2239 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2341:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2341 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2342:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2342 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::container(Finder&) [with THaystack = Segment >, InfixSegment>; TSpec = Swift > >; typename Parameter_::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:2047:73: required from ‘bool seqan::windowFindBegin(Finder >&, Pattern >&, double) [with THaystack = Segment >, InfixSegment>; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 2047 | pattern.finderLength = pattern.params.tabooLength + length(container(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1200:29: required from ‘void seqan::_mapMatePairReadsParallel(FragmentStore&, unsigned int, TThreadLocalStorages&, const String >&, TCounts&, char, TRazerSOptions&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TCounts = String >; TRazerSOptions = RazerSOptions<>; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1200 | if (!windowFindBegin(filterFinderR, filterPatternR, tls.options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1489:38: required from ‘int seqan::_mapMatePairReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1489 | _mapMatePairReadsParallel(store, contigId, threadLocalStorages, splitters, cnts, 'F', options, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1657:41: required from ‘int seqan::_mapMatePairReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1657 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:793:42: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 793 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h: In instantiation of ‘bool seqan::matchVerify(TMatchVerifier&, Segment, unsigned int, const TRead&, const RazerSMode&) [with TMatchVerifier = MatchVerifier, String, Alloc<> >, RazerSOptions<>, RazerSMode, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, String > >; TGenome = String >; TRead = Segment >, InfixSegment>; TMatchNPolicy = NMatchesAll_]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:302:20: required from ‘void seqan::workVerification(ThreadLocalStorage >&, Job >&, const String >&) [with TMatches = String, Alloc<> >; TFragmentStore = FragmentStore; TFilterFinder = Finder >, Swift > > >; TFilterPattern = Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >; TShape = Shape, UngappedShape<0> >; TOptions = RazerSOptions<>; TCounts = String >; TRazerSMode = RazerSMode; THitString = String, Alloc<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 302 | matchVerify(tls.verifier, swiftInfix(value(it), contigSeq), absReadId, tls.globalStore->readSeqStore[absReadId], TRazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:757:33: required from ‘void seqan::_mapSingleReadsParallelToContig(FragmentStore&, TThreadLocalStorages&, const String >&, const TContigId&, TCounts&, char, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TContigId = unsigned int; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 757 | workVerification(tls, job, splitters); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1039:44: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1039 | _mapSingleReadsParallelToContig(store, threadLocalStorages, splitters, contigId, cnts, 'F', options, shape, mode, TFilterSpec()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1203:39: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1203 | return _mapSingleReadsParallel(store, cnts, options, shape, mode, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2155:18: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2155 | TGenomeInfix origInf(inf); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2238:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2238 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2239:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2239 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2341:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2341 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2342:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2342 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_pigeonhole.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSpec = void]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2785:21: required from ‘void seqan::_applyFilterOptions(Pattern >&, const TOptions&) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TPigeonholeSpec = void; TOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 2785 | _patternInit(filterPattern, options.errorRate); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:878:28: required from ‘void seqan::initializeThreadLocalStoragesSingle(TThreadLocalStorages&, TFragmentStore&, const TSplitters&, TShape&, TOptions&) [with TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TFragmentStore = FragmentStore; TSplitters = String >; TShape = const Shape, OneGappedShape>; TOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 878 | _applyFilterOptions(filterPattern, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1014:40: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Pigeonhole]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1014 | initializeThreadLocalStoragesSingle(threadLocalStorages, store, splitters, shape, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1208:39: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1208 | return _mapSingleReadsParallel(store, cnts, options, Shape(), mode, Pigeonhole()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_pigeonhole.h:462:35: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 462 | indexShape(host(pattern)) = pattern.shape; | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h: In instantiation of ‘bool seqan::matchVerify(TMatchVerifier&, Segment, unsigned int, const TRead&, const RazerSMode&) [with TMatchVerifier = MatchVerifier, String, Alloc<> >, RazerSOptions<>, RazerSMode, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, String > >; TGenome = String >; TRead = Segment >, InfixSegment>; TMatchNPolicy = NMatchesAll_]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:302:20: required from ‘void seqan::workVerification(ThreadLocalStorage >&, Job >&, const String >&) [with TMatches = String, Alloc<> >; TFragmentStore = FragmentStore; TFilterFinder = Finder >, Pigeonhole >; TFilterPattern = Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >; TShape = Shape, OneGappedShape>; TOptions = RazerSOptions<>; TCounts = String >; TRazerSMode = RazerSMode; THitString = String, Alloc<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 302 | matchVerify(tls.verifier, swiftInfix(value(it), contigSeq), absReadId, tls.globalStore->readSeqStore[absReadId], TRazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:757:33: required from ‘void seqan::_mapSingleReadsParallelToContig(FragmentStore&, TThreadLocalStorages&, const String >&, const TContigId&, TCounts&, char, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TContigId = unsigned int; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Pigeonhole]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 757 | workVerification(tls, job, splitters); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1039:44: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Pigeonhole]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1039 | _mapSingleReadsParallelToContig(store, threadLocalStorages, splitters, contigId, cnts, 'F', options, shape, mode, TFilterSpec()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1208:39: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1208 | return _mapSingleReadsParallel(store, cnts, options, Shape(), mode, Pigeonhole()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2155:18: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2155 | TGenomeInfix origInf(inf); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2238:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2238 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2239:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2239 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2341:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2341 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2342:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2342 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2896:17: required from ‘void seqan::_applyFilterOptions(Pattern >&, const TOptions&) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 2896 | _patternInit(filterPattern, options.errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3026:24: required from ‘int seqan::_mapSingleReads(FragmentStore&, TCounts&, RazerSOptions&, const RazerSMode&, TReadIndex&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TMatchNPolicy = NMatchesAll_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3026 | _applyFilterOptions(filterPattern, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3146:27: required from ‘int seqan::_mapSingleReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3146 | return _mapSingleReads(store, cnts, options, mode, swiftIndex, TFilterSpec()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3216:31: required from ‘int seqan::_mapSingleReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3216 | return _mapSingleReads(store, cnts, options, shape, mode, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3343:31: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3343 | return _mapSingleReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h: In instantiation of ‘bool seqan::matchVerify(TMatchVerifier&, Segment, unsigned int, const TRead&, const RazerSMode&) [with TMatchVerifier = MatchVerifier, String, Alloc<> >, RazerSOptions<>, RazerSMode, Pattern >, Owner > >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, String > >; TGenome = String >; TRead = Segment >, InfixSegment>; TMatchNPolicy = NMatchesAll_]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2979:24: required from ‘void seqan::_mapSingleReadsToContig(TMatches&, TFragmentStore&, unsigned int, Pattern&, TCounts&, char, TRazerSOptions&, const TRazerSMode&) [with TMatches = String, Alloc<> >; TFragmentStore = FragmentStore; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TFilterSpec = Swift > >; TCounts = String >; TRazerSOptions = RazerSOptions<>; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2979 | matchVerify(verifier, infix(filterFinder), verifier.m.readId, readSet[verifier.m.readId], mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3054:36: required from ‘int seqan::_mapSingleReads(FragmentStore&, TCounts&, RazerSOptions&, const RazerSMode&, TReadIndex&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TMatchNPolicy = NMatchesAll_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3054 | _mapSingleReadsToContig(matches, store, contigId, filterPattern, cnts, 'F', options, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3146:27: required from ‘int seqan::_mapSingleReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3146 | return _mapSingleReads(store, cnts, options, mode, swiftIndex, TFilterSpec()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3216:31: required from ‘int seqan::_mapSingleReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3216 | return _mapSingleReads(store, cnts, options, shape, mode, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3343:31: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3343 | return _mapSingleReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2155:18: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2155 | TGenomeInfix origInf(inf); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2238:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2238 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2239:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2239 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2341:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2341 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2342:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2342 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2896:17: required from ‘void seqan::_applyFilterOptions(Pattern >&, const TOptions&) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 2896 | _patternInit(filterPattern, options.errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:878:28: required from ‘void seqan::initializeThreadLocalStoragesSingle(TThreadLocalStorages&, TFragmentStore&, const TSplitters&, TShape&, TOptions&) [with TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TFragmentStore = FragmentStore; TSplitters = String >; TShape = const Shape, GappedShape > >; TOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 878 | _applyFilterOptions(filterPattern, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1014:40: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1014 | initializeThreadLocalStoragesSingle(threadLocalStorages, store, splitters, shape, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1203:39: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1203 | return _mapSingleReadsParallel(store, cnts, options, shape, mode, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h: In instantiation of ‘bool seqan::matchVerify(TMatchVerifier&, Segment, unsigned int, const TRead&, const RazerSMode&) [with TMatchVerifier = MatchVerifier, String, Alloc<> >, RazerSOptions<>, RazerSMode, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, String > >; TGenome = String >; TRead = Segment >, InfixSegment>; TMatchNPolicy = NMatchesAll_]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:302:20: required from ‘void seqan::workVerification(ThreadLocalStorage >&, Job >&, const String >&) [with TMatches = String, Alloc<> >; TFragmentStore = FragmentStore; TFilterFinder = Finder >, Swift > > >; TFilterPattern = Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >; TShape = Shape, GappedShape > >; TOptions = RazerSOptions<>; TCounts = String >; TRazerSMode = RazerSMode; THitString = String, Alloc<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 302 | matchVerify(tls.verifier, swiftInfix(value(it), contigSeq), absReadId, tls.globalStore->readSeqStore[absReadId], TRazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:757:33: required from ‘void seqan::_mapSingleReadsParallelToContig(FragmentStore&, TThreadLocalStorages&, const String >&, const TContigId&, TCounts&, char, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TContigId = unsigned int; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 757 | workVerification(tls, job, splitters); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1039:44: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1039 | _mapSingleReadsParallelToContig(store, threadLocalStorages, splitters, contigId, cnts, 'F', options, shape, mode, TFilterSpec()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1203:39: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1203 | return _mapSingleReadsParallel(store, cnts, options, shape, mode, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2155:18: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2155 | TGenomeInfix origInf(inf); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2238:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2238 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2239:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2239 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2341:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2341 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2342:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2342 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::container(Finder&) [with THaystack = Segment >, InfixSegment>; TSpec = Pigeonhole; typename Parameter_::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_pigeonhole.h:924:42: required from ‘bool seqan::find(Finder >&, Pattern >&, double) [with THaystack = Segment >, InfixSegment>; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 924 | pattern.finderLength = length(container(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:695:16: required from ‘void seqan::_mapMatePairReads(TMatches&, FragmentStore&, unsigned int, Pattern&, Pattern&, TCounts&, char, TRazerSOptions&, const TRazerSMode&) [with TMatches = String, Alloc<> >; TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TFilterSpec = Pigeonhole; TCounts = String >; TRazerSOptions = RazerSOptions<>; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 695 | while (find(filterFinderR, filterPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:1114:30: required from ‘int seqan::_mapMatePairReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Pigeonhole]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1114 | _mapMatePairReads(matches, store, contigId, filterPatternL, filterPatternR, cnts, 'F', options, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3252:33: required from ‘int seqan::_mapMatePairReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3252 | return _mapMatePairReads(store, cnts, options, Shape(), mode, Pigeonhole()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3340:37: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3340 | return _mapMatePairReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3431:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3431 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:793:42: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 793 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_pigeonhole.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSpec = Hamming_]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2785:21: required from ‘void seqan::_applyFilterOptions(Pattern >&, const TOptions&) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TPigeonholeSpec = Hamming_; TOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2785 | _patternInit(filterPattern, options.errorRate); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3026:24: required from ‘int seqan::_mapSingleReads(FragmentStore&, TCounts&, RazerSOptions&, const RazerSMode&, TReadIndex&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TMatchNPolicy = NMatchesAll_; TFilterSpec = Pigeonhole]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3026 | _applyFilterOptions(filterPattern, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3146:27: required from ‘int seqan::_mapSingleReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Pigeonhole]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3146 | return _mapSingleReads(store, cnts, options, mode, swiftIndex, TFilterSpec()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3221:31: required from ‘int seqan::_mapSingleReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3221 | return _mapSingleReads(store, cnts, options, Shape(), mode, Pigeonhole()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3343:31: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3343 | return _mapSingleReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3431:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3431 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_pigeonhole.h:462:35: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 462 | indexShape(host(pattern)) = pattern.shape; | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::container(Finder&) [with THaystack = Segment >, InfixSegment>; TSpec = Swift > >; typename Parameter_::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:2047:73: required from ‘bool seqan::windowFindBegin(Finder >&, Pattern >&, double) [with THaystack = Segment >, InfixSegment>; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2047 | pattern.finderLength = pattern.params.tabooLength + length(container(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1200:29: required from ‘void seqan::_mapMatePairReadsParallel(FragmentStore&, unsigned int, TThreadLocalStorages&, const String >&, TCounts&, char, TRazerSOptions&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TCounts = String >; TRazerSOptions = RazerSOptions<>; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1200 | if (!windowFindBegin(filterFinderR, filterPatternR, tls.options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1489:38: required from ‘int seqan::_mapMatePairReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1489 | _mapMatePairReadsParallel(store, contigId, threadLocalStorages, splitters, cnts, 'F', options, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1657:41: required from ‘int seqan::_mapMatePairReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 1657 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3431:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3431 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:793:42: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 793 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_pigeonhole.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSpec = Hamming_]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2785:21: required from ‘void seqan::_applyFilterOptions(Pattern >&, const TOptions&) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TPigeonholeSpec = Hamming_; TOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2785 | _patternInit(filterPattern, options.errorRate); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:878:28: required from ‘void seqan::initializeThreadLocalStoragesSingle(TThreadLocalStorages&, TFragmentStore&, const TSplitters&, TShape&, TOptions&) [with TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TFragmentStore = FragmentStore; TSplitters = String >; TShape = const Shape, OneGappedShape>; TOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 878 | _applyFilterOptions(filterPattern, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1014:40: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Pigeonhole]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1014 | initializeThreadLocalStoragesSingle(threadLocalStorages, store, splitters, shape, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1208:39: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1208 | return _mapSingleReadsParallel(store, cnts, options, Shape(), mode, Pigeonhole()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3431:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3431 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_pigeonhole.h:462:35: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 462 | indexShape(host(pattern)) = pattern.shape; | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2896:17: required from ‘void seqan::_applyFilterOptions(Pattern >&, const TOptions&) [with TIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 2896 | _patternInit(filterPattern, options.errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3026:24: required from ‘int seqan::_mapSingleReads(FragmentStore&, TCounts&, RazerSOptions&, const RazerSMode&, TReadIndex&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TMatchNPolicy = NMatchesAll_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3026 | _applyFilterOptions(filterPattern, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3146:27: required from ‘int seqan::_mapSingleReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3146 | return _mapSingleReads(store, cnts, options, mode, swiftIndex, TFilterSpec()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3216:31: required from ‘int seqan::_mapSingleReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3216 | return _mapSingleReads(store, cnts, options, shape, mode, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3343:31: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3343 | return _mapSingleReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3431:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 3431 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2896:17: required from ‘void seqan::_applyFilterOptions(Pattern >&, const TOptions&) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSwiftSpec = Tag >; TOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2896 | _patternInit(filterPattern, options.errorRate, 0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:878:28: required from ‘void seqan::initializeThreadLocalStoragesSingle(TThreadLocalStorages&, TFragmentStore&, const TSplitters&, TShape&, TOptions&) [with TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TFragmentStore = FragmentStore; TSplitters = String >; TShape = const Shape, GappedShape > >; TOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 878 | _applyFilterOptions(filterPattern, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1014:40: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1014 | initializeThreadLocalStoragesSingle(threadLocalStorages, store, splitters, shape, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1203:39: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 1203 | return _mapSingleReadsParallel(store, cnts, options, shape, mode, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3431:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3431 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:713:23: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 713 | pattern.shape = indexShape(host(pattern)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h: In instantiation of ‘bool seqan::matchVerify(TMatchVerifier&, Segment, unsigned int, const TRead&, const RazerSMode&) [with TMatchVerifier = MatchVerifier, String, Alloc<> >, RazerSOptions<>, RazerSMode, Pattern >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, String > >; TGenome = String >; TRead = Segment >, InfixSegment>; TMatchNPolicy = NMatchesNone_]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2979:24: required from ‘void seqan::_mapSingleReadsToContig(TMatches&, TFragmentStore&, unsigned int, Pattern&, TCounts&, char, TRazerSOptions&, const TRazerSMode&) [with TMatches = String, Alloc<> >; TFragmentStore = FragmentStore; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TFilterSpec = Swift > >; TCounts = String >; TRazerSOptions = RazerSOptions<>; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 2979 | matchVerify(verifier, infix(filterFinder), verifier.m.readId, readSet[verifier.m.readId], mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3054:36: required from ‘int seqan::_mapSingleReads(FragmentStore&, TCounts&, RazerSOptions&, const RazerSMode&, TReadIndex&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TMatchNPolicy = NMatchesNone_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3054 | _mapSingleReadsToContig(matches, store, contigId, filterPattern, cnts, 'F', options, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3146:27: required from ‘int seqan::_mapSingleReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3146 | return _mapSingleReads(store, cnts, options, mode, swiftIndex, TFilterSpec()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3216:31: required from ‘int seqan::_mapSingleReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3216 | return _mapSingleReads(store, cnts, options, shape, mode, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3343:31: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3343 | return _mapSingleReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3443:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 3443 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2155:18: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2155 | TGenomeInfix origInf(inf); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2238:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2238 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2239:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2239 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2341:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2341 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2342:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2342 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h: In instantiation of ‘bool seqan::matchVerify(TMatchVerifier&, Segment, unsigned int, const TRead&, const RazerSMode&) [with TMatchVerifier = MatchVerifier, String, Alloc<> >, RazerSOptions<>, RazerSMode, Pattern >, Owner > >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, String > >; TGenome = String >; TRead = Segment >, InfixSegment>; TMatchNPolicy = NMatchesNone_]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2979:24: required from ‘void seqan::_mapSingleReadsToContig(TMatches&, TFragmentStore&, unsigned int, Pattern&, TCounts&, char, TRazerSOptions&, const TRazerSMode&) [with TMatches = String, Alloc<> >; TFragmentStore = FragmentStore; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TFilterSpec = Pigeonhole; TCounts = String >; TRazerSOptions = RazerSOptions<>; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 2979 | matchVerify(verifier, infix(filterFinder), verifier.m.readId, readSet[verifier.m.readId], mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3054:36: required from ‘int seqan::_mapSingleReads(FragmentStore&, TCounts&, RazerSOptions&, const RazerSMode&, TReadIndex&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TReadIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TMatchNPolicy = NMatchesNone_; TFilterSpec = Pigeonhole]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3054 | _mapSingleReadsToContig(matches, store, contigId, filterPattern, cnts, 'F', options, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3146:27: required from ‘int seqan::_mapSingleReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_; TFilterSpec = Pigeonhole]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3146 | return _mapSingleReads(store, cnts, options, mode, swiftIndex, TFilterSpec()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3221:31: required from ‘int seqan::_mapSingleReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3221 | return _mapSingleReads(store, cnts, options, Shape(), mode, Pigeonhole()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3343:31: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3343 | return _mapSingleReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3443:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3443 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2155:18: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2155 | TGenomeInfix origInf(inf); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2238:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2238 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2239:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2239 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2341:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2341 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2342:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2342 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h: In instantiation of ‘bool seqan::matchVerify(TMatchVerifier&, Segment, unsigned int, const TRead&, const RazerSMode&) [with TMatchVerifier = MatchVerifier, String, Alloc<> >, RazerSOptions<>, RazerSMode, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, String > >; TGenome = String >; TRead = Segment >, InfixSegment>; TMatchNPolicy = NMatchesNone_]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:302:20: required from ‘void seqan::workVerification(ThreadLocalStorage >&, Job >&, const String >&) [with TMatches = String, Alloc<> >; TFragmentStore = FragmentStore; TFilterFinder = Finder >, Swift > > >; TFilterPattern = Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >; TShape = Shape, UngappedShape<0> >; TOptions = RazerSOptions<>; TCounts = String >; TRazerSMode = RazerSMode; THitString = String, Alloc<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 302 | matchVerify(tls.verifier, swiftInfix(value(it), contigSeq), absReadId, tls.globalStore->readSeqStore[absReadId], TRazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:757:33: required from ‘void seqan::_mapSingleReadsParallelToContig(FragmentStore&, TThreadLocalStorages&, const String >&, const TContigId&, TCounts&, char, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TContigId = unsigned int; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 757 | workVerification(tls, job, splitters); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1039:44: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1039 | _mapSingleReadsParallelToContig(store, threadLocalStorages, splitters, contigId, cnts, 'F', options, shape, mode, TFilterSpec()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1203:39: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1203 | return _mapSingleReadsParallel(store, cnts, options, shape, mode, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3443:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3443 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2155:18: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2155 | TGenomeInfix origInf(inf); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2238:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2238 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2239:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2239 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2341:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2341 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2342:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2342 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h: In instantiation of ‘bool seqan::matchVerify(TMatchVerifier&, Segment, unsigned int, const TRead&, const RazerSMode&) [with TMatchVerifier = MatchVerifier, String, Alloc<> >, RazerSOptions<>, RazerSMode, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, String > >; TGenome = String >; TRead = Segment >, InfixSegment>; TMatchNPolicy = NMatchesNone_]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:302:20: required from ‘void seqan::workVerification(ThreadLocalStorage >&, Job >&, const String >&) [with TMatches = String, Alloc<> >; TFragmentStore = FragmentStore; TFilterFinder = Finder >, Pigeonhole >; TFilterPattern = Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >; TShape = Shape, OneGappedShape>; TOptions = RazerSOptions<>; TCounts = String >; TRazerSMode = RazerSMode; THitString = String, Alloc<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 302 | matchVerify(tls.verifier, swiftInfix(value(it), contigSeq), absReadId, tls.globalStore->readSeqStore[absReadId], TRazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:757:33: required from ‘void seqan::_mapSingleReadsParallelToContig(FragmentStore&, TThreadLocalStorages&, const String >&, const TContigId&, TCounts&, char, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TContigId = unsigned int; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_; TFilterSpec = Pigeonhole]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 757 | workVerification(tls, job, splitters); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1039:44: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_; TFilterSpec = Pigeonhole]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1039 | _mapSingleReadsParallelToContig(store, threadLocalStorages, splitters, contigId, cnts, 'F', options, shape, mode, TFilterSpec()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1208:39: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1208 | return _mapSingleReadsParallel(store, cnts, options, Shape(), mode, Pigeonhole()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3443:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3443 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2155:18: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2155 | TGenomeInfix origInf(inf); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2238:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2238 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2239:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2239 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2341:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2341 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2342:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2342 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h: In instantiation of ‘bool seqan::matchVerify(TMatchVerifier&, Segment, unsigned int, const TRead&, const RazerSMode&) [with TMatchVerifier = MatchVerifier, String, Alloc<> >, RazerSOptions<>, RazerSMode, Pattern >, Owner > >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, String > >; TGenome = String >; TRead = Segment >, InfixSegment>; TMatchNPolicy = NMatchesNone_]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2979:24: required from ‘void seqan::_mapSingleReadsToContig(TMatches&, TFragmentStore&, unsigned int, Pattern&, TCounts&, char, TRazerSOptions&, const TRazerSMode&) [with TMatches = String, Alloc<> >; TFragmentStore = FragmentStore; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TFilterSpec = Swift > >; TCounts = String >; TRazerSOptions = RazerSOptions<>; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 2979 | matchVerify(verifier, infix(filterFinder), verifier.m.readId, readSet[verifier.m.readId], mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3054:36: required from ‘int seqan::_mapSingleReads(FragmentStore&, TCounts&, RazerSOptions&, const RazerSMode&, TReadIndex&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TMatchNPolicy = NMatchesNone_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3054 | _mapSingleReadsToContig(matches, store, contigId, filterPattern, cnts, 'F', options, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3146:27: required from ‘int seqan::_mapSingleReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3146 | return _mapSingleReads(store, cnts, options, mode, swiftIndex, TFilterSpec()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3216:31: required from ‘int seqan::_mapSingleReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3216 | return _mapSingleReads(store, cnts, options, shape, mode, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3343:31: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3343 | return _mapSingleReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3443:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3443 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2155:18: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2155 | TGenomeInfix origInf(inf); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2238:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2238 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2239:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2239 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2341:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2341 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2342:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2342 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h: In instantiation of ‘bool seqan::matchVerify(TMatchVerifier&, Segment, unsigned int, const TRead&, const RazerSMode&) [with TMatchVerifier = MatchVerifier, String, Alloc<> >, RazerSOptions<>, RazerSMode, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, String > >; TGenome = String >; TRead = Segment >, InfixSegment>; TMatchNPolicy = NMatchesNone_]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:302:20: required from ‘void seqan::workVerification(ThreadLocalStorage >&, Job >&, const String >&) [with TMatches = String, Alloc<> >; TFragmentStore = FragmentStore; TFilterFinder = Finder >, Swift > > >; TFilterPattern = Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >; TShape = Shape, GappedShape > >; TOptions = RazerSOptions<>; TCounts = String >; TRazerSMode = RazerSMode; THitString = String, Alloc<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 302 | matchVerify(tls.verifier, swiftInfix(value(it), contigSeq), absReadId, tls.globalStore->readSeqStore[absReadId], TRazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:757:33: required from ‘void seqan::_mapSingleReadsParallelToContig(FragmentStore&, TThreadLocalStorages&, const String >&, const TContigId&, TCounts&, char, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TContigId = unsigned int; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 757 | workVerification(tls, job, splitters); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1039:44: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1039 | _mapSingleReadsParallelToContig(store, threadLocalStorages, splitters, contigId, cnts, 'F', options, shape, mode, TFilterSpec()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1203:39: required from ‘int seqan::_mapSingleReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1203 | return _mapSingleReadsParallel(store, cnts, options, shape, mode, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3443:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3443 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2155:18: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2155 | TGenomeInfix origInf(inf); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2238:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2238 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2239:41: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2239 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2341:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2341 | TReadRev readRev(readPrefix); | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2342:33: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 2342 | TGenomeInfixRev infRev(inf); | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:92: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:139:40: required from ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 139 | : data_container(_toPointer(container_)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: required from ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 541 | return TIterator(me, begin(me, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:600:17: required from ‘typename seqan::Iterator::Type>::Type seqan::begin(const T&) [with T = Segment >, InfixSegment>; typename Iterator::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 600 | return begin(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io_sam.h:1013:50: required from ‘void seqan::_writeAlignments(TFile&, FragmentStore&, Sam, const TAlignFunctor&) [with TFile = std::basic_ofstream; TSpec = MyFragStoreConfig; TConfig = FragmentStoreConfig; TAlignFunctor = FunctorGlobalEditDistAlign; Sam = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1013 | for (TReadNameIterator it = begin(store.readNameStore[readId]); it != end(store.readNameStore[readId]); ++it) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1224:33: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazerSMode = RazerSMode; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1224 | _writeAlignments(file, store, Sam(), FunctorGlobalEditDistAlign()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1309:27: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSLocal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1309 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1353:31: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 1353 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:258:20: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 258 | dumpMatches(store, stats, readFileNames[0], options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:81: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h: In instantiation of ‘seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1189:28: required from ‘typename seqan::Iterator >::Type seqan::iter(T&, TPos, Tag) [with T = Gaps >, AnchorGaps, Alloc<> > > >; TPos = long int; TTag = Rooted_; typename Iterator >::Type = Iter >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1189 | return begin(me, tag_) + pos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1169:16: required from ‘typename seqan::Iterator::Type>::Type seqan::iter(T&, TPos) [with T = Gaps >, AnchorGaps, Alloc<> > > >; TPos = long int; typename Iterator::Type>::Type = Iter >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1169 | return iter(me, pos, typename DefaultGetIteratorSpec::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_anchor.h:465:20: required from ‘void seqan::insertGaps(Gaps >&, TPosition, TCount) [with TSequence = String >; TGapAnchors = String, Alloc<> >; TPosition = long int; TCount = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 465 | TIter it = iter(gaps, clippedViewPos); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_base.h:628:15: required from ‘void seqan::insertGap(Gaps&, TPosition) [with TSequence = String >; TSpec = AnchorGaps, Alloc<> > >; TPosition = long int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 628 | insertGaps(gaps, clippedViewPos, 1u); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2582:18: required from ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&) [with TSpec = MyFragStoreConfig; TConfig = FragmentStoreConfig; TScore = Score >; TShrinkMatches = True]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2582 | insertGap(gaps, insPos - rBegin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1231:40: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazerSMode = RazerSMode; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1231 | convertMatchesToGlobalAlignment(store, scoreType, True()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1309:27: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSLocal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1309 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1353:31: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1353 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:258:20: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 258 | dumpMatches(store, stats, readFileNames[0], options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:742:58: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 742 | Iter > > result = lhs; | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:744:12: warning: implicitly-declared ‘constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)’ is deprecated [-Wdeprecated-copy] 744 | return result; | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: because ‘seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >’ has user-provided ‘const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]’ 117 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:139:40: required from ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 139 | : data_container(_toPointer(container_)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: required from ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 541 | return TIterator(me, begin(me, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:600:17: required from ‘typename seqan::Iterator::Type>::Type seqan::begin(const T&) [with T = Segment >, InfixSegment>; typename Iterator::Type>::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >; typename DefaultGetIteratorSpec::Type = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 600 | return begin(me, typename DefaultGetIteratorSpec::Type()) ; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io.h:971:31: required from ‘int seqan::write(TFile&, FragmentStore&, Amos) [with TFile = std::basic_ofstream; TSpec = MyFragStoreConfig; TConfig = FragmentStoreConfig; Amos = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 971 | TSeqIter seqIt = begin(value(fragStore.readSeqStore, idCount)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1232:14: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazerSMode = RazerSMode; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1232 | write(file, store, Amos()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1309:27: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSLocal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1309 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/outputFormat.h:1353:31: required from ‘int seqan::dumpMatches(FragmentStore&, TCounts&, CharString, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 1353 | return dumpMatches(store, stats, readFName, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:258:20: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 258 | dumpMatches(store, stats, readFileNames[0], options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_iterator_anchor.h:117:22: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = unsigned int; TExpand = TagGenerous_; typename Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45: required from ‘static typename seqan::Size::Type seqan::_Resize_String::resize_(T&, typename seqan::Size::Type) [with T = seqan::String, seqan::Alloc<> >; TExpand = seqan::Tag; typename seqan::Size::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1887 | TSize new_capacity = reserve(me, new_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50: required from ‘typename seqan::Size >::Type seqan::resize(String&, TSize, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long int; TExpand = TagGenerous_; typename Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1952 | return _Resize_String >::resize_(me, new_length); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18: required from ‘typename seqan::Size::Type seqan::resize(T&, TSize) [with T = String, Alloc<> >; TSize = long int; typename Size::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2143 | return resize(me, new_length, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/file_format_mmap.h:793:9: required from ‘void seqan::assignSeq(TSeq&, const TFastaSeq&, Fastq) [with TSeq = String, Alloc<> >; TFastaSeq = Segment >, InfixSegment>; Fastq = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 793 | resize(dst, itEnd - it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/file_format_mmap.h:1423:13: required from ‘void seqan::assignSeq(TSeq&, const TFileSeq&, const TagSelector&) [with TSeq = String, Alloc<> >; TFileSeq = Segment >, InfixSegment>; TTagList = TagList, TagList, TagList > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1423 | assignSeq(dst, seq, TFormatTag()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:835:14: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 835 | assignSeq(firstRead, multiFasta[0], format); // read the first sequence /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45: required from ‘static typename seqan::Size::Type seqan::_Resize_String::resize_(T&, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1887 | TSize new_capacity = reserve(me, new_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50: required from ‘typename seqan::Size >::Type seqan::resize(String&, TSize, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1952 | return _Resize_String >::resize_(me, new_length); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18: required from ‘typename seqan::Size::Type seqan::resize(T&, TSize) [with T = String >; TSize = int; typename Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2143 | return resize(me, new_length, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:193:23: required from ‘bool seqan::loadReads(FragmentStore&, const char*, const char*, TRazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 193 | resize(seq[j], options.trimLength); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:186:23: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 186 | if (!loadReads(store, toCString(readFileNames[0]), toCString(readFileNames[1]), options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:616:25: required from ‘typename seqan::Iterator >::Type seqan::begin(T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 616 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:375:32: required from ‘seqan::Finder >::Finder(THaystack&, TRepeatSize, TPeriodSize) [with TRepeatSize = int; TPeriodSize = int; THaystack = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 375 | data_iterator(begin(haystack, Rooted())), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:679:20: required from ‘void seqan::_mapMatePairReads(TMatches&, FragmentStore&, unsigned int, Pattern&, Pattern&, TCounts&, char, TRazerSOptions&, const TRazerSMode&) [with TMatches = String, Alloc<> >; TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TFilterSpec = Swift > >; TCounts = String >; TRazerSOptions = RazerSOptions<>; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 679 | TFilterFinderR filterFinderR(genomeInf, options.repeatLength, 1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:1114:30: required from ‘int seqan::_mapMatePairReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1114 | _mapMatePairReads(matches, store, contigId, filterPatternL, filterPatternR, cnts, 'F', options, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3247:33: required from ‘int seqan::_mapMatePairReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 3247 | return _mapMatePairReads(store, cnts, options, shape, mode, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3340:37: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 3340 | return _mapMatePairReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:532:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 532 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::host(Finder&) [with THaystack = Segment >, InfixSegment>; TSpec = Pigeonhole; typename Parameter_::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_pigeonhole.h:887:30: required from ‘bool seqan::_firstNonRepeatRange(TFinder&, Pattern >&) [with TFinder = Finder >, InfixSegment>, Pigeonhole >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 887 | finder.endPos = length(host(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_pigeonhole.h:930:28: required from ‘bool seqan::find(Finder >&, Pattern >&, double) [with THaystack = Segment >, InfixSegment>; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 930 | if (!_firstNonRepeatRange(finder, pattern)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:695:16: required from ‘void seqan::_mapMatePairReads(TMatches&, FragmentStore&, unsigned int, Pattern&, Pattern&, TCounts&, char, TRazerSOptions&, const TRazerSMode&) [with TMatches = String, Alloc<> >; TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TFilterSpec = Pigeonhole; TCounts = String >; TRazerSOptions = RazerSOptions<>; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 695 | while (find(filterFinderR, filterPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:1114:30: required from ‘int seqan::_mapMatePairReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Pigeonhole]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1114 | _mapMatePairReads(matches, store, contigId, filterPatternL, filterPatternR, cnts, 'F', options, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3252:33: required from ‘int seqan::_mapMatePairReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 3252 | return _mapMatePairReads(store, cnts, options, Shape(), mode, Pigeonhole()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3340:37: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 3340 | return _mapMatePairReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:778:42: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 778 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter > seqan::operator+(const Iter >&, TIntegral) [with TContainer = Segment >, InfixSegment>; TIterator = SimpleType*; TSpec = Tag; TIntegral = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_pigeonhole.h:896:43: required from ‘bool seqan::_firstNonRepeatRange(TFinder&, Pattern >&) [with TFinder = Finder >, InfixSegment>, Pigeonhole >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 896 | finder.haystackEnd = begin(host(finder)) + (finder.endPos - length(pattern.shape) + 1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_pigeonhole.h:930:28: required from ‘bool seqan::find(Finder >&, Pattern >&, double) [with THaystack = Segment >, InfixSegment>; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 930 | if (!_firstNonRepeatRange(finder, pattern)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:695:16: required from ‘void seqan::_mapMatePairReads(TMatches&, FragmentStore&, unsigned int, Pattern&, Pattern&, TCounts&, char, TRazerSOptions&, const TRazerSMode&) [with TMatches = String, Alloc<> >; TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TFilterSpec = Pigeonhole; TCounts = String >; TRazerSOptions = RazerSOptions<>; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 695 | while (find(filterFinderR, filterPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:1114:30: required from ‘int seqan::_mapMatePairReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Pigeonhole]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1114 | _mapMatePairReads(matches, store, contigId, filterPatternL, filterPatternR, cnts, 'F', options, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3252:33: required from ‘int seqan::_mapMatePairReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3252 | return _mapMatePairReads(store, cnts, options, Shape(), mode, Pigeonhole()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3340:37: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3340 | return _mapMatePairReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:609:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 609 | return Iter >(container(left), hostIterator(left) + right); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::host(Finder&) [with THaystack = Segment >, InfixSegment>; TSpec = Swift > >; typename Parameter_::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1813:36: required from ‘bool seqan::_firstNonRepeatRange(TFinder&, Pattern >&) [with TFinder = Finder >, InfixSegment>, Swift > > >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1813 | finder.endPos = length(host(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:2054:30: required from ‘bool seqan::windowFindBegin(Finder >&, Pattern >&, double) [with THaystack = Segment >, InfixSegment>; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2054 | if (!_firstNonRepeatRange(finder, pattern)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1200:29: required from ‘void seqan::_mapMatePairReadsParallel(FragmentStore&, unsigned int, TThreadLocalStorages&, const String >&, TCounts&, char, TRazerSOptions&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TCounts = String >; TRazerSOptions = RazerSOptions<>; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1200 | if (!windowFindBegin(filterFinderR, filterPatternR, tls.options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1489:38: required from ‘int seqan::_mapMatePairReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1489 | _mapMatePairReadsParallel(store, contigId, threadLocalStorages, splitters, cnts, 'F', options, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1657:41: required from ‘int seqan::_mapMatePairReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1657 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:778:42: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 778 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::host(Finder&) [with THaystack = Segment >, InfixSegment>; TSpec = Pigeonhole; typename Parameter_::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_pigeonhole.h:887:30: required from ‘bool seqan::_firstNonRepeatRange(TFinder&, Pattern >&) [with TFinder = Finder >, InfixSegment>, Pigeonhole >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 887 | finder.endPos = length(host(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_pigeonhole.h:930:28: required from ‘bool seqan::find(Finder >&, Pattern >&, double) [with THaystack = Segment >, InfixSegment>; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Hamming_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 930 | if (!_firstNonRepeatRange(finder, pattern)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:695:16: required from ‘void seqan::_mapMatePairReads(TMatches&, FragmentStore&, unsigned int, Pattern&, Pattern&, TCounts&, char, TRazerSOptions&, const TRazerSMode&) [with TMatches = String, Alloc<> >; TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TFilterSpec = Pigeonhole; TCounts = String >; TRazerSOptions = RazerSOptions<>; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 695 | while (find(filterFinderR, filterPatternR, options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:1114:30: required from ‘int seqan::_mapMatePairReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, OneGappedShape>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Pigeonhole]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1114 | _mapMatePairReads(matches, store, contigId, filterPatternL, filterPatternR, cnts, 'F', options, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3252:33: required from ‘int seqan::_mapMatePairReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3252 | return _mapMatePairReads(store, cnts, options, Shape(), mode, Pigeonhole()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3340:37: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3340 | return _mapMatePairReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3431:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3431 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:778:42: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 778 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::host(Finder&) [with THaystack = Segment >, InfixSegment>; TSpec = Swift > >; typename Parameter_::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:1813:36: required from ‘bool seqan::_firstNonRepeatRange(TFinder&, Pattern >&) [with TFinder = Finder >, InfixSegment>, Swift > > >; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1813 | finder.endPos = length(host(finder)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:2054:30: required from ‘bool seqan::windowFindBegin(Finder >&, Pattern >&, double) [with THaystack = Segment >, InfixSegment>; TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2054 | if (!_firstNonRepeatRange(finder, pattern)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1200:29: required from ‘void seqan::_mapMatePairReadsParallel(FragmentStore&, unsigned int, TThreadLocalStorages&, const String >&, TCounts&, char, TRazerSOptions&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TCounts = String >; TRazerSOptions = RazerSOptions<>; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1200 | if (!windowFindBegin(filterFinderR, filterPatternR, tls.options.errorRate)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1489:38: required from ‘int seqan::_mapMatePairReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&, TFilterSpec) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_; TFilterSpec = Swift > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1489 | _mapMatePairReadsParallel(store, contigId, threadLocalStorages, splitters, cnts, 'F', options, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1657:41: required from ‘int seqan::_mapMatePairReadsParallel(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const RazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TScoreMode = RazerSErrors; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1657 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode, Swift()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3431:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3431 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:778:42: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 778 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1444:21: required from ‘void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1444 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1465:31: required from ‘void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1465 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:849:31: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 849 | arrayConstructMove(old_array, old_array + start, seq_array); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42: required from ‘void seqan::append(String&, const TSource&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1421 | AppendString_ >::append_(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_concat_direct.h:318:11: required from ‘void seqan::appendValue(StringSet > >&, const TString2&, Tag) [with TString = String >; TString2 = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 318 | append(me.concat, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:1657:13: required from ‘typename seqan::Size::TMatePairStore>::Type seqan::appendMatePair(FragmentStore&, const TRead&, const TRead&, const CharString&, const CharString&) [with TSpec = MyFragStoreConfig; TConfig = FragmentStoreConfig; TRead = String >; typename Size::TMatePairStore>::Type = long unsigned int; typename FragmentStore::TMatePairStore = String, Alloc<> >; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1657 | appendValue(me.readSeqStore, read1, Generous()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:206:23: required from ‘bool seqan::loadReads(FragmentStore&, const char*, const char*, TRazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 206 | appendMatePair(store, seq[0], seq[1], seqId[0], seqId[1]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:186:23: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 186 | if (!loadReads(store, toCString(readFileNames[0]), toCString(readFileNames[1]), options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1589:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1589 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:101: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h: In instantiation of ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String >, seqan::InfixSegment>, seqan::Alloc<> >; TValue = const seqan::Segment >, seqan::InfixSegment>; TExpand = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Segment >, InfixSegment>; TTargetSpec = Alloc<>; TValue = Segment >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_owner.h:146:16: required from ‘void seqan::appendValue(StringSet >&, const TString2&, Tag) [with TString = Segment >, InfixSegment>; TString2 = Segment >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 146 | appendValue(me.strings, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = StringSet >, InfixSegment>, Owner<> >; TValue = Segment >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:398:24: required from ‘void seqan::initializeThreadLocalStoragesPaired(TThreadLocalStorages&, TFragmentStore&, const TSplitters&, TShape&, TOptions&) [with TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TFragmentStore = FragmentStore; TSplitters = String >; TShape = const Shape, UngappedShape<0> >; TOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 398 | appendValue(indexText(indexL), readSetL[j]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1463:40: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1475:37: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1475 | typename Value::Type temp_copy(_value); //temp copy because resize could invalidate _value | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h: In instantiation of ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String >, seqan::InfixSegment>, seqan::Alloc<> >; TValue = const seqan::Segment >, seqan::InfixSegment>; TExpand = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = const Segment >, InfixSegment>; TTargetSpec = Alloc<>; TValue = Segment >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_owner.h:146:16: required from ‘void seqan::appendValue(StringSet >&, const TString2&, Tag) [with TString = const Segment >, InfixSegment>; TString2 = Segment >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 146 | appendValue(me.strings, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = StringSet >, InfixSegment>, Owner<> >; TValue = Segment >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:865:24: required from ‘void seqan::initializeThreadLocalStoragesSingle(TThreadLocalStorages&, TFragmentStore&, const TSplitters&, TShape&, TOptions&) [with TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TFragmentStore = FragmentStore; TSplitters = String >; TShape = const Shape, UngappedShape<0> >; TOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 865 | appendValue(indexText(index), store.readSeqStore[j]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1014:40: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1475:37: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 1475 | typename Value::Type temp_copy(_value); //temp copy because resize could invalidate _value | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1925:45: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2153:18: required from ‘typename seqan::Size::Type seqan::resize(T&, TSize, const TValue&) [with T = String >; TSize = int; TValue = SimpleType; typename Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2153 | return resize(me, new_length, val, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:484:9: required from ‘void seqan::initPatterns(TStateString&, const TShape&, int, const TLogErrorDistr&, TDistance, bool) [with TStateString = String, double>, Alloc<> >; TShape = String >; TLogErrorDistr = String; TDistance = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 484 | resize(pattern, span, (ErrorAlphabet)SEQAN_MATCH); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:1118:14: required from ‘void seqan::qgramFilteringSensitivity(TSensitivityMatrix&, const TShape&, TPatternSize, TErrors, TThresh, TDistance, ThreshExact, const TErrorDist&) [with TSensitivityMatrix = String; TShape = Shape, GappedShape > >; TPatternSize = unsigned int; TErrors = unsigned int; TThresh = unsigned int; TDistance = Tag; TErrorDist = String; ThreshExact = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1118 | initPatterns(states, bitString, errors, logErrorDistribution, dist, true); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/paramChooser.h:741:42: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 741 | qgramFilteringSensitivity(sensMat, shape, totalN, maxErrors - 1, maxT - 1, HammingDistance(), ThreshExact(), logErrorDistribution); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/paramChooser.h:1310:30: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1310 | makeSelectedStatsFile(errorDistribution, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:838:30: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 838 | if (!chooseParams(options, pm_options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveBackwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1641:30: required from ‘void seqan::arrayMoveBackward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1641 | _arrayMoveBackwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1213:26: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = SimpleType*; TSource1 = SimpleType*; TSource2 = SimpleType*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1213 | arrayMoveBackward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1660:14: required from ‘void seqan::_arrayClearSpacePointer(TValue*, size_t, size_t, size_t, const True&) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1660 | arrayMove(array_begin + keep_from, array_begin + array_length, array_begin + move_to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1681:28: required from ‘void seqan::arrayClearSpace(TValue*, size_t, size_t, size_t) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1681 | _arrayClearSpacePointer(array_begin, array_length, keep_from, move_to, typename IsSimple::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:856:28: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 856 | arrayClearSpace(seq_array + start, old_length - start, removed_size, size); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42: required from ‘void seqan::append(String&, const TSource&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1421 | AppendString_ >::append_(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_concat_direct.h:318:11: required from ‘void seqan::appendValue(StringSet > >&, const TString2&, Tag) [with TString = String >; TString2 = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 318 | append(me.concat, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:1657:13: required from ‘typename seqan::Size::TMatePairStore>::Type seqan::appendMatePair(FragmentStore&, const TRead&, const TRead&, const CharString&, const CharString&) [with TSpec = MyFragStoreConfig; TConfig = FragmentStoreConfig; TRead = String >; typename Size::TMatePairStore>::Type = long unsigned int; typename FragmentStore::TMatePairStore = String, Alloc<> >; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1657 | appendValue(me.readSeqStore, read1, Generous()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:206:23: required from ‘bool seqan::loadReads(FragmentStore&, const char*, const char*, TRazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 206 | appendMatePair(store, seq[0], seq[1], seqId[0], seqId[1]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:186:23: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 186 | if (!loadReads(store, toCString(readFileNames[0]), toCString(readFileNames[1]), options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1621:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1621 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:69: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSource = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TValue2 = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; typename Reference > >::Type = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Swift > >; typename Host >::Type = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:653:36: required from ‘void seqan::_mapMatePairReads(TMatches&, FragmentStore&, unsigned int, Pattern&, Pattern&, TCounts&, char, TRazerSOptions&, const TRazerSMode&) [with TMatches = String, Alloc<> >; TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TFilterSpec = Swift > >; TCounts = String >; TRazerSOptions = RazerSOptions<>; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 653 | TReadSet & readSetL = host(host(filterPatternL)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:1114:30: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3340:37: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 3340 | return _mapMatePairReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >& seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >::operator=(const seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:81: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: because ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >’ has user-provided ‘seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::StringSet >, seqan::InfixSegment>, seqan::Owner<> >; TShapeSpec = seqan::Shape, seqan::UngappedShape<0> >]’ 159 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_endDefault(T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:841:23: required from ‘typename seqan::Iterator >::Type seqan::end(T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 841 | return _endDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_reverse.h:463:24: required from ‘typename seqan::Iterator >, const seqan::Tag >::Type seqan::begin(ModifiedString >&, Tag) [with THost = Segment >, InfixSegment>; TTagSpec = Rooted_; typename Iterator >, const Tag >::Type = ModifiedIterator >, InfixSegment>, AdaptorIterator*, Tag > >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 463 | TIterator temp_(end(host(me), Rooted())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:440:24: required from ‘seqan::Finder::Finder(THaystack&) [with THaystack = seqan::ModifiedString >, seqan::InfixSegment>, seqan::Tag >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 440 | : data_iterator(begin(haystack, Rooted())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2241:41: required from ‘bool seqan::matchVerify(TMatchVerifier&, Segment, unsigned int, const TRead&, const RazerSMode&) [with TMatchVerifier = MatchVerifier, String, Alloc<> >, RazerSOptions<>, RazerSMode, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, String > >; TGenome = String >; TRead = Segment >, InfixSegment>; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 2241 | TMyersFinderRev myersFinderRev(infRev); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:792:40: required from ‘void seqan::_mapMatePairReads(TMatches&, FragmentStore&, unsigned int, Pattern&, Pattern&, TCounts&, char, TRazerSOptions&, const TRazerSMode&) [with TMatches = String, Alloc<> >; TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TFilterSpec = Swift > >; TCounts = String >; TRazerSOptions = RazerSOptions<>; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 792 | if (matchVerify(verifierL, infix(genome, ((*it).i2.beginPos >= 0) ? (TSignedGPos)(*it).i2.beginPos : (TSignedGPos)0, (TSignedGPos)(*it).i2.endPos), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 793 | leftReadId, readSetL[matePairId], mode)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:1114:30: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3340:37: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 3340 | return _mapMatePairReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:768:12: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 768 | return TIterator(me, end(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSource = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TValue2 = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; typename Reference > >::Type = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Pigeonhole; typename Host >::Type = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2795:64: required from ‘void seqan::_applyFilterOptions(Pattern >&, const TOptions&) [with TIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TPigeonholeSpec = void; TOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2795 | std::cout << " stepsize: " << getStepSize(host(filterPattern)) << std::endl; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:1087:24: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3340:37: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 3340 | return _mapMatePairReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >& seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >::operator=(const seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: because ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >’ has user-provided ‘seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::StringSet >, seqan::InfixSegment>, seqan::Owner<> >; TShapeSpec = seqan::Shape, seqan::OneGappedShape>]’ 159 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:116:15: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 116 | class Index > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >& seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >::operator=(const seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSource = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TValue2 = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; typename Reference > >::Type = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Swift > >; typename Host >::Type = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:858:30: required from ‘void seqan::initializeThreadLocalStoragesSingle(TThreadLocalStorages&, TFragmentStore&, const TSplitters&, TShape&, TOptions&) [with TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TFragmentStore = FragmentStore; TSplitters = String >; TShape = const Shape, UngappedShape<0> >; TOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 858 | TIndex & index = host(tls.filterPattern); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1014:40: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >& seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >::operator=(const seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: because ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >’ has user-provided ‘seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::StringSet >, seqan::InfixSegment>, seqan::Owner<> >; TShapeSpec = seqan::Shape, seqan::UngappedShape<0> >]’ 159 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSource = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TValue2 = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; typename Reference > >::Type = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Pigeonhole; typename Host >::Type = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:858:30: required from ‘void seqan::initializeThreadLocalStoragesSingle(TThreadLocalStorages&, TFragmentStore&, const TSplitters&, TShape&, TOptions&) [with TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TFragmentStore = FragmentStore; TSplitters = String >; TShape = const Shape, OneGappedShape>; TOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 858 | TIndex & index = host(tls.filterPattern); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1014:40: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >& seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >::operator=(const seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: because ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >’ has user-provided ‘seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::StringSet >, seqan::InfixSegment>, seqan::Owner<> >; TShapeSpec = seqan::Shape, seqan::OneGappedShape>]’ 159 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:116:15: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 116 | class Index > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >& seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >::operator=(const seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSource = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TValue2 = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; typename Reference > >::Type = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSpec = Swift > >; typename Host >::Type = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:653:36: required from ‘void seqan::_mapMatePairReads(TMatches&, FragmentStore&, unsigned int, Pattern&, Pattern&, TCounts&, char, TRazerSOptions&, const TRazerSMode&) [with TMatches = String, Alloc<> >; TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TReadIndex = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TFilterSpec = Swift > >; TCounts = String >; TRazerSOptions = RazerSOptions<>; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 653 | TReadSet & readSetL = host(host(filterPatternL)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:1114:30: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3340:37: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3340 | return _mapMatePairReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >& seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >::operator=(const seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: because ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >’ has user-provided ‘seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::StringSet >, seqan::InfixSegment>, seqan::Owner<> >; TShapeSpec = seqan::Shape, seqan::GappedShape > >]’ 159 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:116:15: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 116 | class Index > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >& seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >::operator=(const seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSource = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TValue2 = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; typename Reference > >::Type = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSpec = Swift > >; typename Host >::Type = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:858:30: required from ‘void seqan::initializeThreadLocalStoragesSingle(TThreadLocalStorages&, TFragmentStore&, const TSplitters&, TShape&, TOptions&) [with TThreadLocalStorages = String, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >, Alloc<> >; TFragmentStore = FragmentStore; TSplitters = String >; TShape = const Shape, GappedShape > >; TOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 858 | TIndex & index = host(tls.filterPattern); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:1014:40: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >& seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >::operator=(const seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: because ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >’ has user-provided ‘seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::StringSet >, seqan::InfixSegment>, seqan::Owner<> >; TShapeSpec = seqan::Shape, seqan::GappedShape > >]’ 159 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:116:15: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 116 | class Index > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >& seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >::operator=(const seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1444:21: required from ‘void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1444 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1465:31: required from ‘void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1465 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:849:31: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 849 | arrayConstructMove(old_array, old_array + start, seq_array); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: required from ‘typename seqan::Size >::Type seqan::_clearSpace(String&, TSize, TPosition, TPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long unsigned int; TPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1014 | return ClearSpaceStringBase_ >::_clearSpace_(me, size, pos_begin, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1048:30: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1845:16: required from ‘void seqan::insertValue(T&, TPosition, const TValue&) [with T = String >; TPosition = int; TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1845 | insertValue(me, pos, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:511:16: required from ‘void seqan::initPatterns(TStateString&, const TShape&, int, const TLogErrorDistr&, TDistance, bool) [with TStateString = String, double>, Alloc<> >; TShape = String >; TLogErrorDistr = String; TDistance = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 511 | insertValue(pattern, mods[i].i1, (ErrorAlphabet)SEQAN_INSERT); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:1118:14: required from ‘void seqan::qgramFilteringSensitivity(TSensitivityMatrix&, const TShape&, TPatternSize, TErrors, TThresh, TDistance, ThreshExact, const TErrorDist&) [with TSensitivityMatrix = String; TShape = Shape, GappedShape > >; TPatternSize = unsigned int; TErrors = unsigned int; TThresh = unsigned int; TDistance = Tag; TErrorDist = String; ThreshExact = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1118 | initPatterns(states, bitString, errors, logErrorDistribution, dist, true); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/paramChooser.h:741:42: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 741 | qgramFilteringSensitivity(sensMat, shape, totalN, maxErrors - 1, maxT - 1, HammingDistance(), ThreshExact(), logErrorDistribution); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/paramChooser.h:1310:30: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1310 | makeSelectedStatsFile(errorDistribution, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:838:30: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 838 | if (!chooseParams(options, pm_options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1589:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1589 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h: In instantiation of ‘typename seqan::Parameter_::Type seqan::container(Finder&) [with THaystack = Segment >, InfixSegment>; TSpec = void; typename Parameter_::Type = Segment >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1105:63: required from ‘bool seqan::_patternInitSmallStateBanded(TFinder&, const TNeedle2&, PatternState_, True, TFindBeginPatternSpec> >&) [with TFinder = Finder >, InfixSegment>, void>; TNeedle = const Segment >, InfixSegment>; TNeedle2 = Segment >, InfixSegment>; TSpec = FindInfix; TFinderCSP = NMatchesAll_; TPatternCSP = NMatchesAll_; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1105 | typename Size::Type const columns = length(container(finder)) + state.leftClip; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1297:44: required from ‘bool seqan::_stateInit(TFinder&, const TNeedle&, PatternState_, True, TFindBeginPatternSpec> >&) [with TFinder = Finder >, InfixSegment>, void>; TNeedle = Segment >, InfixSegment>; TNeedle2 = const Segment >, InfixSegment>; TSpec = FindInfix; TFinderCSP = NMatchesAll_; TPatternCSP = NMatchesAll_; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1297 | return _patternInitSmallStateBanded(finder, needle, state); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1654:18: required from ‘bool seqan::find(TFinder&, const TNeedle&, PatternState_, True, TFindBeginPatternSpec> >&) [with TFinder = Finder >, InfixSegment>, void>; TNeedle = Segment >, InfixSegment>; TNeedle2 = const Segment >, InfixSegment>; TSpec = FindInfix; TFinderCSP = NMatchesAll_; TPatternCSP = NMatchesAll_; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1654 | if (!_stateInit(finder, needle, state)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1766:13: required from ‘bool seqan::find(TFinder&, const TNeedle&, PatternState_ >&, int) [with TFinder = Finder >, InfixSegment>, void>; TNeedle = Segment >, InfixSegment>; TNeedle2 = const Segment >, InfixSegment>; TSpec = AlignTextBanded; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1766 | return find(finder, needle, state); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2177:16: required from ‘bool seqan::matchVerify(TMatchVerifier&, Segment, unsigned int, const TRead&, const RazerSMode&) [with TMatchVerifier = MatchVerifier, String, Alloc<> >, RazerSOptions<>, RazerSMode, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, String > >; TGenome = String >; TRead = Segment >, InfixSegment>; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2177 | while (find(myersFinder, readPrefix, state, minScore)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:792:40: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3340:37: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 3340 | return _mapMatePairReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:793:42: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 793 | return container(hostIterator(me)); | ^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:61: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_iterator.h: In instantiation of ‘typename seqan::Container >::Type seqan::container(ModifiedIterator&) [with THost = Iter >, InfixSegment>, AdaptorIterator*, Tag > >; TSpec = Tag; typename Container >::Type = ModifiedString >, InfixSegment>, Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_interface.h:752:24: required from ‘void seqan::goEnd(TIterator&) [with TIterator = ModifiedIterator >, InfixSegment>, AdaptorIterator*, Tag > >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 752 | goEnd(it, container(it)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:948:7: required from ‘void seqan::goEnd(Finder&) [with THaystack = ModifiedString >, InfixSegment>, Tag >; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 948 | goEnd(hostIterator(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1656:18: required from ‘bool seqan::find(TFinder&, const TNeedle&, PatternState_, True, TFindBeginPatternSpec> >&) [with TFinder = Finder >, InfixSegment>, Tag >, void>; TNeedle = ModifiedString >, InfixSegment>, Tag >; TNeedle2 = ModifiedString >, InfixSegment>, Tag >; TSpec = FindPrefix; TFinderCSP = NMatchesAll_; TPatternCSP = NMatchesAll_; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1656 | goEnd(finder); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1766:13: required from ‘bool seqan::find(TFinder&, const TNeedle&, PatternState_ >&, int) [with TFinder = Finder >, InfixSegment>, Tag >, void>; TNeedle = ModifiedString >, InfixSegment>, Tag >; TNeedle2 = ModifiedString >, InfixSegment>, Tag >; TSpec = AlignTextBanded; TFindBeginPatternSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1766 | return find(finder, needle, state); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2245:32: required from ‘bool seqan::matchVerify(TMatchVerifier&, Segment, unsigned int, const TRead&, const RazerSMode&) [with TMatchVerifier = MatchVerifier, String, Alloc<> >, RazerSOptions<>, RazerSMode, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, String > >; TGenome = String >; TRead = Segment >, InfixSegment>; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2245 | while (find(myersFinderRev, readRev, verifier.revPatternState, maxScore)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs.h:792:40: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3340:37: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3340 | return _mapMatePairReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_iterator.h:294:16: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 294 | TContainer cont(container(host(me))); | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: initializing argument 1 of ‘seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]’ 139 | ModifiedString(typename Parameter_::Type host) : _host(_toPointer(host)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSource = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TValue2 = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; typename Reference > >::Type = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TSpec = Swift > >; typename Host >::Type = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2948:40: required from ‘void seqan::_mapSingleReadsToContig(TMatches&, TFragmentStore&, unsigned int, Pattern&, TCounts&, char, TRazerSOptions&, const TRazerSMode&) [with TMatches = String, Alloc<> >; TFragmentStore = FragmentStore; TReadIndex = Index >, Owner > >, IndexQGram, UngappedShape<0> >, Tag > >; TFilterSpec = Swift > >; TCounts = String >; TRazerSOptions = RazerSOptions<>; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 2948 | TReadSet & readSet = indexText(host(filterPattern)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3054:36: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3343:31: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3343 | return _mapSingleReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_string.h:139:53: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: because ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >’ has user-provided ‘seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::StringSet >, seqan::Owner > >; TShapeSpec = seqan::Shape, seqan::UngappedShape<0> >]’ 159 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSource = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TValue2 = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; typename Reference > >::Type = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Pigeonhole; typename Host >::Type = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2795:64: required from ‘void seqan::_applyFilterOptions(Pattern >&, const TOptions&) [with TIndex = Index >, Owner > >, IndexQGram, OneGappedShape>, Tag > >; TPigeonholeSpec = void; TOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 2795 | std::cout << " stepsize: " << getStepSize(host(filterPattern)) << std::endl; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3026:24: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3343:31: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 3343 | return _mapSingleReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: because ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >’ has user-provided ‘seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::StringSet >, seqan::Owner > >; TShapeSpec = seqan::Shape, seqan::OneGappedShape>]’ 159 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:116:15: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 116 | class Index > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::Segment >, seqan::InfixSegment>*; TParam = seqan::Segment >, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = Segment >, InfixSegment>*; TParam = Segment >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1481:31: required from ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String >, seqan::InfixSegment>, seqan::Alloc<> >; TValue = const seqan::Segment >, seqan::InfixSegment>; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1481 | valueConstruct(begin(me, Standard()) + me_length, temp_copy); //??? this should be valueMoveConstruct /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = Segment >, InfixSegment>; TTargetSpec = Alloc<>; TValue = Segment >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_owner.h:146:16: required from ‘void seqan::appendValue(StringSet >&, const TString2&, Tag) [with TString = Segment >, InfixSegment>; TString2 = Segment >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 146 | appendValue(me.strings, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = StringSet >, InfixSegment>, Owner<> >; TValue = Segment >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:398:24: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_pigeonhole.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; TSource = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; typename Reference > >::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_paired_match_filter.h:160:64: required from ‘bool seqan::processRead(PairedMatchFilter&, unsigned int) [with TOptionsSpec = RazerSSpec<>; TReadSeqSet = StringSet >, Owner > >; TCallback = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 160 | FilterPatternLSetMaxErrorsWrapper wrapperL(value(filter.callback)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:962:32: required from ‘void seqan::writeBackToLocal(ThreadLocalStorage >&, String&, bool) [with TMatches = String, Alloc<> >; TFragmentStore = FragmentStore; TFilterFinderL = Finder >, Pigeonhole >; TFilterFinderR = Finder >, InfixSegment>, Pigeonhole >; TFilterPattern = Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >; TShape = Shape, OneGappedShape>; TOptions = RazerSOptions<>; TCounts = String >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 962 | disabled += processRead(*tls.matchFilter, it->readId / 2); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1314:29: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_pigeonhole.h:277:15: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 277 | class Pattern > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:84:7: note: synthesized method ‘seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >& seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >::operator=(const seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >&)’ first required here 84 | class ThreadLocalStorage > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:84:7: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Finder >, seqan::InfixSegment>, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >& seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Finder >, seqan::InfixSegment>, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >::operator=(const seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Finder >, seqan::InfixSegment>, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = const seqan::Segment >, seqan::InfixSegment>*; TParam = seqan::Segment >, seqan::InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = const Segment >, InfixSegment>*; TParam = Segment >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1481:31: required from ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String >, seqan::InfixSegment>, seqan::Alloc<> >; TValue = const seqan::Segment >, seqan::InfixSegment>; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1481 | valueConstruct(begin(me, Standard()) + me_length, temp_copy); //??? this should be valueMoveConstruct /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = const Segment >, InfixSegment>; TTargetSpec = Alloc<>; TValue = Segment >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_owner.h:146:16: required from ‘void seqan::appendValue(StringSet >&, const TString2&, Tag) [with TString = const Segment >, InfixSegment>; TString2 = Segment >, InfixSegment>; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 146 | appendValue(me.strings, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = StringSet >, InfixSegment>, Owner<> >; TValue = Segment >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:865:24: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_pigeonhole.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; TSource = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; typename Reference > >::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_match_filter.h:251:20: required from ‘bool seqan::processRead(MatchFilter&, unsigned int) [with TOptionsSpec = RazerSSpec<>; TReadSeqSet = StringSet >, Owner > >; TCallback = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 251 | limitRead(value(filter.callback), readId, newLimit - 1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:472:36: required from ‘void seqan::writeBackToLocal(ThreadLocalStorage >&, String >&, bool) [with TMatches = String, Alloc<> >; TFragmentStore = FragmentStore; TFilterFinder = Finder >, Pigeonhole >; TFilterPattern = Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >; TShape = Shape, OneGappedShape>; TOptions = RazerSOptions<>; TCounts = String >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 472 | disabled += processRead(*tls.matchFilter, it->readId); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:775:29: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_pigeonhole.h:277:15: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 277 | class Pattern > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:116:7: note: synthesized method ‘seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >& seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >::operator=(const seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >&)’ first required here 116 | class ThreadLocalStorage< | ^~~~~~~~~~~~~~~~~~~ 117 | MapSingleReads< | ~~~~~~~~~~~~~~~ 118 | TMatches_, | ~~~~~~~~~~ 119 | TFragmentStore, | ~~~~~~~~~~~~~~~ 120 | TFilterFinder_, | ~~~~~~~~~~~~~~~ 121 | TFilterPattern_, | ~~~~~~~~~~~~~~~~ 122 | TShape, | ~~~~~~~ 123 | TOptions, | ~~~~~~~~~ 124 | TCounts, | ~~~~~~~~ 125 | TRazerSMode> > | ~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:116:7: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >& seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >::operator=(const seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSource = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TValue2 = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; typename Reference > >::Type = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_pattern_base.h:368:14: required from ‘typename seqan::Host >::Type& seqan::host(Pattern&) [with TNeedle = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TSpec = Swift > >; typename Host >::Type = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 368 | return value(me.data_host); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:2948:40: required from ‘void seqan::_mapSingleReadsToContig(TMatches&, TFragmentStore&, unsigned int, Pattern&, TCounts&, char, TRazerSOptions&, const TRazerSMode&) [with TMatches = String, Alloc<> >; TFragmentStore = FragmentStore; TReadIndex = Index >, Owner > >, IndexQGram, GappedShape > >, Tag > >; TFilterSpec = Swift > >; TCounts = String >; TRazerSOptions = RazerSOptions<>; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 2948 | TReadSet & readSet = indexText(host(filterPattern)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3054:36: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3343:31: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3343 | return _mapSingleReads(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: because ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >’ has user-provided ‘seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::StringSet >, seqan::Owner > >; TShapeSpec = seqan::Shape, seqan::GappedShape > >]’ 159 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:116:15: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 116 | class Index > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >& seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >::operator=(const seqan::Index >, seqan::Owner > >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; TSource = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; typename Reference > >::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_paired_match_filter.h:160:64: required from ‘bool seqan::processRead(PairedMatchFilter&, unsigned int) [with TOptionsSpec = RazerSSpec<>; TReadSeqSet = StringSet >, Owner > >; TCallback = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 160 | FilterPatternLSetMaxErrorsWrapper wrapperL(value(filter.callback)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:962:32: required from ‘void seqan::writeBackToLocal(ThreadLocalStorage >&, String&, bool) [with TMatches = String, Alloc<> >; TFragmentStore = FragmentStore; TFilterFinderL = Finder >, Swift > > >; TFilterFinderR = Finder >, InfixSegment>, Swift > > >; TFilterPattern = Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >; TShape = Shape, GappedShape > >; TOptions = RazerSOptions<>; TCounts = String >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 962 | disabled += processRead(*tls.matchFilter, it->readId / 2); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1314:29: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:497:11: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 497 | class Pattern > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:84:7: note: synthesized method ‘seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >& seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >::operator=(const seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >&)’ first required here 84 | class ThreadLocalStorage > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:84:7: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >& seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >::operator=(const seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; TSource = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; typename Reference > >::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_match_filter.h:251:20: required from ‘bool seqan::processRead(MatchFilter&, unsigned int) [with TOptionsSpec = RazerSSpec<>; TReadSeqSet = StringSet >, Owner > >; TCallback = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 251 | limitRead(value(filter.callback), readId, newLimit - 1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:472:36: required from ‘void seqan::writeBackToLocal(ThreadLocalStorage >&, String >&, bool) [with TMatches = String, Alloc<> >; TFragmentStore = FragmentStore; TFilterFinder = Finder >, Swift > > >; TFilterPattern = Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >; TShape = Shape, GappedShape > >; TOptions = RazerSOptions<>; TCounts = String >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 472 | disabled += processRead(*tls.matchFilter, it->readId); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:775:29: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:497:11: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 497 | class Pattern > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:116:7: note: synthesized method ‘seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >& seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >::operator=(const seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >&)’ first required here 116 | class ThreadLocalStorage< | ^~~~~~~~~~~~~~~~~~~ 117 | MapSingleReads< | ~~~~~~~~~~~~~~~ 118 | TMatches_, | ~~~~~~~~~~ 119 | TFragmentStore, | ~~~~~~~~~~~~~~~ 120 | TFilterFinder_, | ~~~~~~~~~~~~~~~ 121 | TFilterPattern_, | ~~~~~~~~~~~~~~~~ 122 | TShape, | ~~~~~~~ 123 | TOptions, | ~~~~~~~~~ 124 | TCounts, | ~~~~~~~~ 125 | TRazerSMode> > | ~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:116:7: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >& seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >::operator=(const seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_pigeonhole.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; TSource = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; typename Reference > >::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_paired_match_filter.h:160:64: required from ‘bool seqan::processRead(PairedMatchFilter&, unsigned int) [with TOptionsSpec = RazerSSpec<>; TReadSeqSet = StringSet >, Owner > >; TCallback = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 160 | FilterPatternLSetMaxErrorsWrapper wrapperL(value(filter.callback)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:962:32: required from ‘void seqan::writeBackToLocal(ThreadLocalStorage >&, String&, bool) [with TMatches = String, Alloc<> >; TFragmentStore = FragmentStore; TFilterFinderL = Finder >, Pigeonhole >; TFilterFinderR = Finder >, InfixSegment>, Pigeonhole >; TFilterPattern = Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >; TShape = Shape, OneGappedShape>; TOptions = RazerSOptions<>; TCounts = String >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 962 | disabled += processRead(*tls.matchFilter, it->readId / 2); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1314:29: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3431:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3431 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_pigeonhole.h:277:15: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 277 | class Pattern > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:84:7: note: synthesized method ‘seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >& seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >::operator=(const seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >&)’ first required here 84 | class ThreadLocalStorage > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:84:7: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Finder >, seqan::InfixSegment>, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >& seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Finder >, seqan::InfixSegment>, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >::operator=(const seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Finder >, seqan::InfixSegment>, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_pigeonhole.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; TSource = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; typename Reference > >::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_match_filter.h:251:20: required from ‘bool seqan::processRead(MatchFilter&, unsigned int) [with TOptionsSpec = RazerSSpec<>; TReadSeqSet = StringSet >, Owner > >; TCallback = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 251 | limitRead(value(filter.callback), readId, newLimit - 1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:472:36: required from ‘void seqan::writeBackToLocal(ThreadLocalStorage >&, String >&, bool) [with TMatches = String, Alloc<> >; TFragmentStore = FragmentStore; TFilterFinder = Finder >, Pigeonhole >; TFilterPattern = Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >; TShape = Shape, OneGappedShape>; TOptions = RazerSOptions<>; TCounts = String >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 472 | disabled += processRead(*tls.matchFilter, it->readId); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:775:29: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3431:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3431 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_pigeonhole.h:277:15: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 277 | class Pattern > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:116:7: note: synthesized method ‘seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >& seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >::operator=(const seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >&)’ first required here 116 | class ThreadLocalStorage< | ^~~~~~~~~~~~~~~~~~~ 117 | MapSingleReads< | ~~~~~~~~~~~~~~~ 118 | TMatches_, | ~~~~~~~~~~ 119 | TFragmentStore, | ~~~~~~~~~~~~~~~ 120 | TFilterFinder_, | ~~~~~~~~~~~~~~~ 121 | TFilterPattern_, | ~~~~~~~~~~~~~~~~ 122 | TShape, | ~~~~~~~ 123 | TOptions, | ~~~~~~~~~ 124 | TCounts, | ~~~~~~~~ 125 | TRazerSMode> > | ~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:116:7: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >& seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >::operator=(const seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; TSource = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; typename Reference > >::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_paired_match_filter.h:160:64: required from ‘bool seqan::processRead(PairedMatchFilter&, unsigned int) [with TOptionsSpec = RazerSSpec<>; TReadSeqSet = StringSet >, Owner > >; TCallback = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 160 | FilterPatternLSetMaxErrorsWrapper wrapperL(value(filter.callback)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:962:32: required from ‘void seqan::writeBackToLocal(ThreadLocalStorage >&, String&, bool) [with TMatches = String, Alloc<> >; TFragmentStore = FragmentStore; TFilterFinderL = Finder >, Swift > > >; TFilterFinderR = Finder >, InfixSegment>, Swift > > >; TFilterPattern = Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >; TShape = Shape, GappedShape > >; TOptions = RazerSOptions<>; TCounts = String >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 962 | disabled += processRead(*tls.matchFilter, it->readId / 2); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1314:29: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3431:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3431 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:497:11: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 497 | class Pattern > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:84:7: note: synthesized method ‘seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >& seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >::operator=(const seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >&)’ first required here 84 | class ThreadLocalStorage > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:84:7: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >& seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >::operator=(const seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; TSource = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; typename Reference > >::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_match_filter.h:251:20: required from ‘bool seqan::processRead(MatchFilter&, unsigned int) [with TOptionsSpec = RazerSSpec<>; TReadSeqSet = StringSet >, Owner > >; TCallback = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 251 | limitRead(value(filter.callback), readId, newLimit - 1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:472:36: required from ‘void seqan::writeBackToLocal(ThreadLocalStorage >&, String >&, bool) [with TMatches = String, Alloc<> >; TFragmentStore = FragmentStore; TFilterFinder = Finder >, Swift > > >; TFilterPattern = Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >; TShape = Shape, GappedShape > >; TOptions = RazerSOptions<>; TCounts = String >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 472 | disabled += processRead(*tls.matchFilter, it->readId); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:775:29: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3431:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3431 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:497:11: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 497 | class Pattern > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:116:7: note: synthesized method ‘seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >& seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >::operator=(const seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >&)’ first required here 116 | class ThreadLocalStorage< | ^~~~~~~~~~~~~~~~~~~ 117 | MapSingleReads< | ~~~~~~~~~~~~~~~ 118 | TMatches_, | ~~~~~~~~~~ 119 | TFragmentStore, | ~~~~~~~~~~~~~~~ 120 | TFilterFinder_, | ~~~~~~~~~~~~~~~ 121 | TFilterPattern_, | ~~~~~~~~~~~~~~~~ 122 | TShape, | ~~~~~~~ 123 | TOptions, | ~~~~~~~~~ 124 | TCounts, | ~~~~~~~~ 125 | TRazerSMode> > | ~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:116:7: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >& seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >::operator=(const seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; TSource = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; typename Reference > >::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_paired_match_filter.h:160:64: required from ‘bool seqan::processRead(PairedMatchFilter&, unsigned int) [with TOptionsSpec = RazerSSpec<>; TReadSeqSet = StringSet >, Owner > >; TCallback = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 160 | FilterPatternLSetMaxErrorsWrapper wrapperL(value(filter.callback)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:962:32: required from ‘void seqan::writeBackToLocal(ThreadLocalStorage >&, String&, bool) [with TMatches = String, Alloc<> >; TFragmentStore = FragmentStore; TFilterFinderL = Finder >, Pigeonhole >; TFilterFinderR = Finder >, InfixSegment>, Pigeonhole >; TFilterPattern = Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >; TShape = Shape, OneGappedShape>; TOptions = RazerSOptions<>; TCounts = String >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 962 | disabled += processRead(*tls.matchFilter, it->readId / 2); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1314:29: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3443:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3443 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:84:7: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 84 | class ThreadLocalStorage > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Finder >, seqan::InfixSegment>, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >& seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Finder >, seqan::InfixSegment>, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >::operator=(const seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Finder >, seqan::InfixSegment>, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; TSource = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; typename Reference > >::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_match_filter.h:251:20: required from ‘bool seqan::processRead(MatchFilter&, unsigned int) [with TOptionsSpec = RazerSSpec<>; TReadSeqSet = StringSet >, Owner > >; TCallback = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 251 | limitRead(value(filter.callback), readId, newLimit - 1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:472:36: required from ‘void seqan::writeBackToLocal(ThreadLocalStorage >&, String >&, bool) [with TMatches = String, Alloc<> >; TFragmentStore = FragmentStore; TFilterFinder = Finder >, Pigeonhole >; TFilterPattern = Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >; TShape = Shape, OneGappedShape>; TOptions = RazerSOptions<>; TCounts = String >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 472 | disabled += processRead(*tls.matchFilter, it->readId); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:775:29: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3443:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3443 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:116:7: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 116 | class ThreadLocalStorage< | ^~~~~~~~~~~~~~~~~~~ 117 | MapSingleReads< | ~~~~~~~~~~~~~~~ 118 | TMatches_, | ~~~~~~~~~~ 119 | TFragmentStore, | ~~~~~~~~~~~~~~~ 120 | TFilterFinder_, | ~~~~~~~~~~~~~~~ 121 | TFilterPattern_, | ~~~~~~~~~~~~~~~~ 122 | TShape, | ~~~~~~~ 123 | TOptions, | ~~~~~~~~~ 124 | TCounts, | ~~~~~~~~ 125 | TRazerSMode> > | ~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >& seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >::operator=(const seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; TSource = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; typename Reference > >::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_paired_match_filter.h:160:64: required from ‘bool seqan::processRead(PairedMatchFilter&, unsigned int) [with TOptionsSpec = RazerSSpec<>; TReadSeqSet = StringSet >, Owner > >; TCallback = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 160 | FilterPatternLSetMaxErrorsWrapper wrapperL(value(filter.callback)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:962:32: required from ‘void seqan::writeBackToLocal(ThreadLocalStorage >&, String&, bool) [with TMatches = String, Alloc<> >; TFragmentStore = FragmentStore; TFilterFinderL = Finder >, Swift > > >; TFilterFinderR = Finder >, InfixSegment>, Swift > > >; TFilterPattern = Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >; TShape = Shape, GappedShape > >; TOptions = RazerSOptions<>; TCounts = String >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 962 | disabled += processRead(*tls.matchFilter, it->readId / 2); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1314:29: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3443:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3443 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:84:7: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 84 | class ThreadLocalStorage > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >& seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >::operator=(const seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; TSource = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; typename Reference > >::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_match_filter.h:251:20: required from ‘bool seqan::processRead(MatchFilter&, unsigned int) [with TOptionsSpec = RazerSSpec<>; TReadSeqSet = StringSet >, Owner > >; TCallback = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 251 | limitRead(value(filter.callback), readId, newLimit - 1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:472:36: required from ‘void seqan::writeBackToLocal(ThreadLocalStorage >&, String >&, bool) [with TMatches = String, Alloc<> >; TFragmentStore = FragmentStore; TFilterFinder = Finder >, Swift > > >; TFilterPattern = Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >; TShape = Shape, GappedShape > >; TOptions = RazerSOptions<>; TCounts = String >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 472 | disabled += processRead(*tls.matchFilter, it->readId); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:775:29: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3443:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3443 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:116:7: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 116 | class ThreadLocalStorage< | ^~~~~~~~~~~~~~~~~~~ 117 | MapSingleReads< | ~~~~~~~~~~~~~~~ 118 | TMatches_, | ~~~~~~~~~~ 119 | TFragmentStore, | ~~~~~~~~~~~~~~~ 120 | TFilterFinder_, | ~~~~~~~~~~~~~~~ 121 | TFilterPattern_, | ~~~~~~~~~~~~~~~~ 122 | TShape, | ~~~~~~~ 123 | TOptions, | ~~~~~~~~~ 124 | TCounts, | ~~~~~~~~ 125 | TRazerSMode> > | ~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >& seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >::operator=(const seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; TSource = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; typename Reference > >::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_paired_match_filter.h:160:64: required from ‘bool seqan::processRead(PairedMatchFilter&, unsigned int) [with TOptionsSpec = RazerSSpec<>; TReadSeqSet = StringSet >, Owner > >; TCallback = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 160 | FilterPatternLSetMaxErrorsWrapper wrapperL(value(filter.callback)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:962:32: required from ‘void seqan::writeBackToLocal(ThreadLocalStorage >&, String&, bool) [with TMatches = String, Alloc<> >; TFragmentStore = FragmentStore; TFilterFinderL = Finder >, Pigeonhole >; TFilterFinderR = Finder >, InfixSegment>, Pigeonhole >; TFilterPattern = Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >; TShape = Shape, OneGappedShape>; TOptions = RazerSOptions<>; TCounts = String >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 962 | disabled += processRead(*tls.matchFilter, it->readId / 2); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1314:29: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3452:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3452 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:84:7: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 84 | class ThreadLocalStorage > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Finder >, seqan::InfixSegment>, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >& seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Finder >, seqan::InfixSegment>, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >::operator=(const seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Finder >, seqan::InfixSegment>, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; TSource = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; typename Reference > >::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_match_filter.h:251:20: required from ‘bool seqan::processRead(MatchFilter&, unsigned int) [with TOptionsSpec = RazerSSpec<>; TReadSeqSet = StringSet >, Owner > >; TCallback = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 251 | limitRead(value(filter.callback), readId, newLimit - 1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:472:36: required from ‘void seqan::writeBackToLocal(ThreadLocalStorage >&, String >&, bool) [with TMatches = String, Alloc<> >; TFragmentStore = FragmentStore; TFilterFinder = Finder >, Pigeonhole >; TFilterPattern = Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >; TShape = Shape, OneGappedShape>; TOptions = RazerSOptions<>; TCounts = String >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 472 | disabled += processRead(*tls.matchFilter, it->readId); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:775:29: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3452:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3452 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:116:7: warning: implicitly-declared ‘seqan::Shape, seqan::OneGappedShape>& seqan::Shape, seqan::OneGappedShape>::operator=(const seqan::Shape, seqan::OneGappedShape>&)’ is deprecated [-Wdeprecated-copy] 116 | class ThreadLocalStorage< | ^~~~~~~~~~~~~~~~~~~ 117 | MapSingleReads< | ~~~~~~~~~~~~~~~ 118 | TMatches_, | ~~~~~~~~~~ 119 | TFragmentStore, | ~~~~~~~~~~~~~~~ 120 | TFilterFinder_, | ~~~~~~~~~~~~~~~ 121 | TFilterPattern_, | ~~~~~~~~~~~~~~~~ 122 | TShape, | ~~~~~~~ 123 | TOptions, | ~~~~~~~~~ 124 | TCounts, | ~~~~~~~~ 125 | TRazerSMode> > | ~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_onegapped.h:135:17: note: because ‘seqan::Shape, seqan::OneGappedShape>’ has user-provided ‘seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]’ 135 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >& seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >::operator=(const seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; TSource = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; typename Reference > >::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_paired_match_filter.h:160:64: required from ‘bool seqan::processRead(PairedMatchFilter&, unsigned int) [with TOptionsSpec = RazerSSpec<>; TReadSeqSet = StringSet >, Owner > >; TCallback = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 160 | FilterPatternLSetMaxErrorsWrapper wrapperL(value(filter.callback)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:962:32: required from ‘void seqan::writeBackToLocal(ThreadLocalStorage >&, String&, bool) [with TMatches = String, Alloc<> >; TFragmentStore = FragmentStore; TFilterFinderL = Finder >, Swift > > >; TFilterFinderR = Finder >, InfixSegment>, Swift > > >; TFilterPattern = Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >; TShape = Shape, GappedShape > >; TOptions = RazerSOptions<>; TCounts = String >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 962 | disabled += processRead(*tls.matchFilter, it->readId / 2); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:1314:29: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3452:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3452 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:84:7: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 84 | class ThreadLocalStorage > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >& seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >::operator=(const seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; TSource = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; typename Reference > >::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_match_filter.h:251:20: required from ‘bool seqan::processRead(MatchFilter&, unsigned int) [with TOptionsSpec = RazerSSpec<>; TReadSeqSet = StringSet >, Owner > >; TCallback = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 251 | limitRead(value(filter.callback), readId, newLimit - 1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:472:36: required from ‘void seqan::writeBackToLocal(ThreadLocalStorage >&, String >&, bool) [with TMatches = String, Alloc<> >; TFragmentStore = FragmentStore; TFilterFinder = Finder >, Swift > > >; TFilterPattern = Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >; TShape = Shape, GappedShape > >; TOptions = RazerSOptions<>; TCounts = String >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 472 | disabled += processRead(*tls.matchFilter, it->readId); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:775:29: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3452:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 3452 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_parallel.h:116:7: warning: implicitly-declared ‘seqan::Shape, seqan::GappedShape > >& seqan::Shape, seqan::GappedShape > >::operator=(const seqan::Shape, seqan::GappedShape > >&)’ is deprecated [-Wdeprecated-copy] 116 | class ThreadLocalStorage< | ^~~~~~~~~~~~~~~~~~~ 117 | MapSingleReads< | ~~~~~~~~~~~~~~~ 118 | TMatches_, | ~~~~~~~~~~ 119 | TFragmentStore, | ~~~~~~~~~~~~~~~ 120 | TFilterFinder_, | ~~~~~~~~~~~~~~~ 121 | TFilterPattern_, | ~~~~~~~~~~~~~~~~ 122 | TShape, | ~~~~~~~ 123 | TOptions, | ~~~~~~~~~ 124 | TCounts, | ~~~~~~~~ 125 | TRazerSMode> > | ~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_gapped.h:330:17: note: because ‘seqan::Shape, seqan::GappedShape > >’ has user-provided ‘seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]’ 330 | Shape(Shape const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: synthesized method ‘seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >& seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >::operator=(const seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >&)’ first required here 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveBackwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1641:30: required from ‘void seqan::arrayMoveBackward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1641 | _arrayMoveBackwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1213:26: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = SimpleType*; TSource1 = SimpleType*; TSource2 = SimpleType*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1213 | arrayMoveBackward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1660:14: required from ‘void seqan::_arrayClearSpacePointer(TValue*, size_t, size_t, size_t, const True&) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1660 | arrayMove(array_begin + keep_from, array_begin + array_length, array_begin + move_to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1681:28: required from ‘void seqan::arrayClearSpace(TValue*, size_t, size_t, size_t) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1681 | _arrayClearSpacePointer(array_begin, array_length, keep_from, move_to, typename IsSimple::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:856:28: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 856 | arrayClearSpace(seq_array + start, old_length - start, removed_size, size); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1845:16: required from ‘void seqan::insertValue(T&, TPosition, const TValue&) [with T = String >; TPosition = int; TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1845 | insertValue(me, pos, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:511:16: required from ‘void seqan::initPatterns(TStateString&, const TShape&, int, const TLogErrorDistr&, TDistance, bool) [with TStateString = String, double>, Alloc<> >; TShape = String >; TLogErrorDistr = String; TDistance = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 511 | insertValue(pattern, mods[i].i1, (ErrorAlphabet)SEQAN_INSERT); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/shape_threshold.h:1118:14: required from ‘void seqan::qgramFilteringSensitivity(TSensitivityMatrix&, const TShape&, TPatternSize, TErrors, TThresh, TDistance, ThreshExact, const TErrorDist&) [with TSensitivityMatrix = String; TShape = Shape, GappedShape > >; TPatternSize = unsigned int; TErrors = unsigned int; TThresh = unsigned int; TDistance = Tag; TErrorDist = String; ThreshExact = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1118 | initPatterns(states, bitString, errors, logErrorDistribution, dist, true); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/paramChooser.h:741:42: required from ‘void seqan::makeSelectedStatsFile(TError&, ParamChooserOptions&) [with TError = String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 741 | qgramFilteringSensitivity(sensMat, shape, totalN, maxErrors - 1, maxT - 1, HammingDistance(), ThreshExact(), logErrorDistribution); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/paramChooser.h:1310:30: required from ‘bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 1310 | makeSelectedStatsFile(errorDistribution, pm_options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:838:30: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: 838 | if (!chooseParams(options, pm_options)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1621:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1621 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::UngappedShape<0> >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >*; TParam = seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::UngappedShape<0> >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >*; TParam = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:606:19: required from ‘typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >, Tag >; TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >; typename Value::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 606 | valueConstruct(ret, data); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:735:42: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 735 | me.data_value = _holderAllocateObject(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >; typename Reference > >::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_paired_match_filter.h:160:64: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:84:7: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 84 | class ThreadLocalStorage > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: synthesized method ‘seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::UngappedShape<0> >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >::ThreadLocalStorage(const seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::UngappedShape<0> >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >&)’ first required here 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Finder >, seqan::InfixSegment>, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >*; TParam = seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Finder >, seqan::InfixSegment>, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >*; TParam = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:606:19: required from ‘typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >, Tag >; TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; typename Value::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 606 | valueConstruct(ret, data); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:735:42: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 735 | me.data_value = _holderAllocateObject(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; typename Reference > >::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_paired_match_filter.h:160:64: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:84:7: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 84 | class ThreadLocalStorage > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: synthesized method ‘seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Finder >, seqan::InfixSegment>, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >::ThreadLocalStorage(const seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Finder >, seqan::InfixSegment>, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >&)’ first required here 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >*; TParam = seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >*; TParam = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:606:19: required from ‘typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >, Tag >; TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; typename Value::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 606 | valueConstruct(ret, data); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:735:42: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 735 | me.data_value = _holderAllocateObject(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; typename Reference > >::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_paired_match_filter.h:160:64: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:84:7: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 84 | class ThreadLocalStorage > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: synthesized method ‘seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >::ThreadLocalStorage(const seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >&)’ first required here 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::UngappedShape<0> >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >*; TParam = seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::UngappedShape<0> >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >*; TParam = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:606:19: required from ‘typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >, Tag >; TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >; typename Value::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 606 | valueConstruct(ret, data); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:735:42: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 735 | me.data_value = _holderAllocateObject(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >; typename Reference > >::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_paired_match_filter.h:160:64: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3431:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3431 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:84:7: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 84 | class ThreadLocalStorage > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: synthesized method ‘seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::UngappedShape<0> >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >::ThreadLocalStorage(const seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::UngappedShape<0> >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >&)’ first required here 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Finder >, seqan::InfixSegment>, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >*; TParam = seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Finder >, seqan::InfixSegment>, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >*; TParam = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:606:19: required from ‘typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >, Tag >; TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; typename Value::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 606 | valueConstruct(ret, data); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:735:42: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 735 | me.data_value = _holderAllocateObject(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; typename Reference > >::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_paired_match_filter.h:160:64: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3431:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3431 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:84:7: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 84 | class ThreadLocalStorage > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: synthesized method ‘seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Finder >, seqan::InfixSegment>, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >::ThreadLocalStorage(const seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Finder >, seqan::InfixSegment>, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >&)’ first required here 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >*; TParam = seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >*; TParam = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:606:19: required from ‘typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >, Tag >; TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; typename Value::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 606 | valueConstruct(ret, data); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:735:42: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 735 | me.data_value = _holderAllocateObject(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; typename Reference > >::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_paired_match_filter.h:160:64: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3431:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3431 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:84:7: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 84 | class ThreadLocalStorage > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: synthesized method ‘seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >::ThreadLocalStorage(const seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >&)’ first required here 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::UngappedShape<0> >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >*; TParam = seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::UngappedShape<0> >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >*; TParam = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:606:19: required from ‘typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >, Tag >; TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >; typename Value::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 606 | valueConstruct(ret, data); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:735:42: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 735 | me.data_value = _holderAllocateObject(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >; typename Reference > >::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_paired_match_filter.h:160:64: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3443:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3443 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:84:7: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 84 | class ThreadLocalStorage > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: synthesized method ‘seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::UngappedShape<0> >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >::ThreadLocalStorage(const seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::UngappedShape<0> >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >&)’ first required here 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Finder >, seqan::InfixSegment>, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >*; TParam = seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Finder >, seqan::InfixSegment>, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >*; TParam = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:606:19: required from ‘typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >, Tag >; TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; typename Value::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 606 | valueConstruct(ret, data); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:735:42: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 735 | me.data_value = _holderAllocateObject(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; typename Reference > >::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_paired_match_filter.h:160:64: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3443:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3443 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:84:7: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 84 | class ThreadLocalStorage > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: synthesized method ‘seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Finder >, seqan::InfixSegment>, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >::ThreadLocalStorage(const seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Finder >, seqan::InfixSegment>, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >&)’ first required here 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >*; TParam = seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >*; TParam = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:606:19: required from ‘typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >, Tag >; TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; typename Value::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 606 | valueConstruct(ret, data); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:735:42: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 735 | me.data_value = _holderAllocateObject(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; typename Reference > >::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_paired_match_filter.h:160:64: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3443:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3443 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:84:7: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 84 | class ThreadLocalStorage > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: synthesized method ‘seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >::ThreadLocalStorage(const seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >&)’ first required here 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::UngappedShape<0> >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >*; TParam = seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::UngappedShape<0> >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >*; TParam = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:606:19: required from ‘typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >, Tag >; TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >; typename Value::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 606 | valueConstruct(ret, data); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:735:42: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 735 | me.data_value = _holderAllocateObject(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >; typename Reference > >::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_paired_match_filter.h:160:64: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3452:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3452 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:84:7: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 84 | class ThreadLocalStorage > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: synthesized method ‘seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::UngappedShape<0> >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >::ThreadLocalStorage(const seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::UngappedShape<0> >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >&)’ first required here 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Finder >, seqan::InfixSegment>, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >*; TParam = seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Finder >, seqan::InfixSegment>, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >*; TParam = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:606:19: required from ‘typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >, Tag >; TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; typename Value::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 606 | valueConstruct(ret, data); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:735:42: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 735 | me.data_value = _holderAllocateObject(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; typename Reference > >::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_paired_match_filter.h:160:64: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3452:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3452 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:84:7: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 84 | class ThreadLocalStorage > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: synthesized method ‘seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Finder >, seqan::InfixSegment>, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >::ThreadLocalStorage(const seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Pigeonhole >, seqan::Finder >, seqan::InfixSegment>, seqan::Pigeonhole >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >, seqan::Pigeonhole >, seqan::Shape, seqan::OneGappedShape>, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >&)’ first required here 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h: In instantiation of ‘static void seqan::ValueConstructor_::construct(TIterator, const TParam&) [with TIterator = seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >*; TParam = seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:363:28: required from ‘void seqan::valueConstruct(TIterator, const TParam&) [with TIterator = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >*; TParam = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 363 | TConstructor::construct(it, param_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:606:19: required from ‘typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >, Tag >; TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; typename Value::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 606 | valueConstruct(ret, data); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:735:42: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 735 | me.data_value = _holderAllocateObject(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; typename Reference > >::Type = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_paired_match_filter.h:160:64: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSUngapped; TMatchNPolicy = NMatchesNone_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3452:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3452 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers_matepairs_parallel.h:84:7: warning: implicitly-declared ‘constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 84 | class ThreadLocalStorage > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: synthesized method ‘seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >::ThreadLocalStorage(const seqan::ThreadLocalStorage, seqan::Alloc<> >, seqan::FragmentStore, seqan::Finder >, seqan::Swift > > >, seqan::Finder >, seqan::InfixSegment>, seqan::Swift > > >, seqan::Pattern >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >, seqan::Swift > > >, seqan::Shape, seqan::GappedShape > >, seqan::RazerSOptions<>, seqan::String >, seqan::RazerSMode > >&)’ first required here 296 | new( (void*) & value(it) ) TNonConstValue(param_); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, const TSource&) [with TTarget = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSource = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:1020:15: required from ‘void seqan::assignValue(Holder >&, const TSource&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSource = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 1020 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:1065:24: required from ‘void seqan::assign(Holder >&, const Holder >&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 1065 | assignValue(target_, value(source_)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:170:15: required from ‘const seqan::Holder >& seqan::Holder >::operator=(const seqan::Holder >&) [with TValue = seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 170 | assign(*this, source_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:497:11: required from ‘void seqan::assign(TTarget&, TSource&) [with TTarget = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >; TSource = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 497 | class Pattern > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:296:9: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:142:12: warning: implicitly-declared ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >& seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >::operator=(const seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 142 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: because ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >’ has user-provided ‘seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::StringSet >, seqan::InfixSegment>, seqan::Owner<> >; TShapeSpec = seqan::Shape, seqan::UngappedShape<0> >]’ 159 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, const TSource&) [with TTarget = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSource = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:1020:15: required from ‘void seqan::assignValue(Holder >&, const TSource&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSource = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 1020 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:1065:24: required from ‘void seqan::assign(Holder >&, const Holder >&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 1065 | assignValue(target_, value(source_)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:170:15: required from ‘const seqan::Holder >& seqan::Holder >::operator=(const seqan::Holder >&) [with TValue = seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 170 | assign(*this, source_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_pigeonhole.h:277:8: required from ‘void seqan::assign(TTarget&, TSource&) [with TTarget = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; TSource = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 277 | class Pattern > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Finder >, InfixSegment>, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:142:12: warning: implicitly-declared ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >& seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >::operator=(const seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 142 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: because ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >’ has user-provided ‘seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::StringSet >, seqan::InfixSegment>, seqan::Owner<> >; TShapeSpec = seqan::Shape, seqan::OneGappedShape>]’ 159 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, const TSource&) [with TTarget = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSource = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:1020:15: required from ‘void seqan::assignValue(Holder >&, const TSource&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >; TSource = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 1020 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:1065:24: required from ‘void seqan::assign(Holder >&, const Holder >&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 1065 | assignValue(target_, value(source_)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:170:15: required from ‘const seqan::Holder >& seqan::Holder >::operator=(const seqan::Holder >&) [with TValue = seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 170 | assign(*this, source_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:497:11: required from ‘void seqan::assign(TTarget&, TSource&) [with TTarget = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >; TSource = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 497 | class Pattern > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, UngappedShape<0> >, Tag > >, Swift > > >, Shape, UngappedShape<0> >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:142:12: warning: implicitly-declared ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >& seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >::operator=(const seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 142 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: because ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::UngappedShape<0> >, seqan::Tag > >’ has user-provided ‘seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::StringSet >, seqan::InfixSegment>, seqan::Owner<> >; TShapeSpec = seqan::Shape, seqan::UngappedShape<0> >]’ 159 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, const TSource&) [with TTarget = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSource = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:1020:15: required from ‘void seqan::assignValue(Holder >&, const TSource&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSource = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 1020 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:1065:24: required from ‘void seqan::assign(Holder >&, const Holder >&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 1065 | assignValue(target_, value(source_)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:170:15: required from ‘const seqan::Holder >& seqan::Holder >::operator=(const seqan::Holder >&) [with TValue = seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 170 | assign(*this, source_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_pigeonhole.h:277:8: required from ‘void seqan::assign(TTarget&, TSource&) [with TTarget = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; TSource = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 277 | class Pattern > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Pigeonhole >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >, Pigeonhole >, Shape, OneGappedShape>, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, UngappedShape<0> >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3376:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 3376 | return _mapReads(store, cnts, options, ungapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:142:12: warning: implicitly-declared ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >& seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >::operator=(const seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 142 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: because ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::OneGappedShape>, seqan::Tag > >’ has user-provided ‘seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::StringSet >, seqan::InfixSegment>, seqan::Owner<> >; TShapeSpec = seqan::Shape, seqan::OneGappedShape>]’ 159 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, const TSource&) [with TTarget = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSource = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:1020:15: required from ‘void seqan::assignValue(Holder >&, const TSource&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSource = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 1020 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:1065:24: required from ‘void seqan::assign(Holder >&, const Holder >&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 1065 | assignValue(target_, value(source_)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:170:15: required from ‘const seqan::Holder >& seqan::Holder >::operator=(const seqan::Holder >&) [with TValue = seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 170 | assign(*this, source_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:497:11: required from ‘void seqan::assign(TTarget&, TSource&) [with TTarget = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; TSource = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 497 | class Pattern > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Finder >, InfixSegment>, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3351:45: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 3351 | return _mapMatePairReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:142:12: warning: implicitly-declared ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >& seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >::operator=(const seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 142 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: because ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >’ has user-provided ‘seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::StringSet >, seqan::InfixSegment>, seqan::Owner<> >; TShapeSpec = seqan::Shape, seqan::GappedShape > >]’ 159 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, const TSource&) [with TTarget = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSource = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:1020:15: required from ‘void seqan::assignValue(Holder >&, const TSource&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >; TSource = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 1020 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:1065:24: required from ‘void seqan::assign(Holder >&, const Holder >&) [with TValue = Index >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 1065 | assignValue(target_, value(source_)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:170:15: required from ‘const seqan::Holder >& seqan::Holder >::operator=(const seqan::Holder >&) [with TValue = seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 170 | assign(*this, source_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_swift.h:497:11: required from ‘void seqan::assign(TTarget&, TSource&) [with TTarget = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; TSource = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 497 | class Pattern > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >; TValue2 = ThreadLocalStorage, Alloc<> >, FragmentStore, Finder >, Swift > > >, Pattern >, InfixSegment>, Owner<> >, IndexQGram, GappedShape > >, Tag > >, Swift > > >, Shape, GappedShape > >, RazerSOptions<>, String >, RazerSMode > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3354:39: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TShape&, const TRazerSMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TShape = Shape, GappedShape > >; TRazerSMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 3354 | return _mapSingleReadsParallel(store, cnts, options, shape, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3381:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, const TRazersMode&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TRazersMode = RazerSMode]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 3381 | return _mapReads(store, cnts, options, gapped, mode); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3396:25: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&, RazerSMode) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>; TAlignMode = RazerSGlobal; TGapMode = RazerSGapped; TMatchNPolicy = NMatchesAll_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 3396 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:3422:33: required from ‘int seqan::_mapReads(FragmentStore&, TCounts&, RazerSOptions&) [with TFSSpec = MyFragStoreConfig; TFSConfig = FragmentStoreConfig; TCounts = String >; TSpec = RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 3422 | return _mapReads(store, cnts, options, RazerSMode()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:236:26: required from ‘int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 236 | int error = _mapReads(store, stats, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:865:26: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: 865 | int result = mapReads(genomeFileNames, readFileNames, options); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:142:12: warning: implicitly-declared ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >& seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >::operator=(const seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >&)’ is deprecated [-Wdeprecated-copy] 142 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram_openaddressing.h:159:17: note: because ‘seqan::Index >, seqan::InfixSegment>, seqan::Owner<> >, seqan::IndexQGram, seqan::GappedShape > >, seqan::Tag > >’ has user-provided ‘seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::StringSet >, seqan::InfixSegment>, seqan::Owner<> >; TShapeSpec = seqan::Shape, seqan::GappedShape > >]’ 159 | Index(Index const &other): | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:64, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:38: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h: In member function ‘void seqan::SequenceStreamImpl_::_guessFileTypeAndFormatForReadingAndInitialize()’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:310:25: warning: this statement may fall through [-Wimplicit-fallthrough=] 310 | _fileFormat = this->_checkFormat(*_istreamReader); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:313:9: note: here 313 | case SeqIOFileType_::FILE_TYPE_AUTO: | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:51: In function ‘std::__copy_move::__copy_m(char const*, char const*, char*)char*’, inlined from ‘std::__copy_move_a2(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:507:30, inlined from ‘std::__copy_move_a1(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:534:42, inlined from ‘std::__copy_move_a(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:541:31, inlined from ‘std::copy(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:637:7, inlined from ‘seqan::_arrayCopyForwardDefault(char const*, char const*, char*)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:855:16, inlined from ‘seqan::arrayCopyForward(char const*, char const*, char*)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:865:29, inlined from ‘seqan::_arrayConstructCopyPointer(char const*, char const*, char*, seqan::True)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21, inlined from ‘seqan::arrayConstructCopy(char const*, char const*, char*)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31, inlined from ‘seqan::AssignString_ >::assign_ >, char const>(seqan::String >&, char const&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1128:31, inlined from ‘seqan::assign, char, seqan::TagGenerous_>(seqan::String >&, char const&, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1176:42, inlined from ‘seqan::assign, char>(seqan::String >&, char&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1099:11, inlined from ‘seqan::String >::String(char&)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:100:19, inlined from ‘seqan::_parseReadFilepath >, char>(std::basic_fstream >&, char&)seqan::String >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_parsing.h:330:15, inlined from ‘seqan::getGenomeFileNameList >(seqan::String >, seqan::StringSet >, seqan::Owner > >&, seqan::RazerSOptions >&)int’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:630:60: /usr/include/c++/14/bits/stl_algobase.h:438:30: warning: ‘memcpy’ forming offset 1 is out of the bounds [0, 1] of object ‘c’ with type ‘char’ [-Warray-bounds=] 438 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h: In function ‘seqan::getGenomeFileNameList >(seqan::String >, seqan::StringSet >, seqan::Owner > >&, seqan::RazerSOptions >&)int’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:613:10: note: ‘c’ declared here 613 | char c = _streamGet(file); | ^ In function ‘std::__copy_move::__copy_m(char const*, char const*, char*)char*’, inlined from ‘std::__copy_move_a2(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:507:30, inlined from ‘std::__copy_move_a1(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:534:42, inlined from ‘std::__copy_move_a(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:541:31, inlined from ‘std::copy(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:637:7, inlined from ‘seqan::_arrayCopyForwardDefault(char const*, char const*, char*)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:855:16, inlined from ‘seqan::arrayCopyForward(char const*, char const*, char*)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:865:29, inlined from ‘seqan::_arrayConstructCopyPointer(char const*, char const*, char*, seqan::True)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21, inlined from ‘seqan::arrayConstructCopy(char const*, char const*, char*)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31, inlined from ‘seqan::AppendString_ >::append_ >, char const>(seqan::String >&, char const&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1368:31, inlined from ‘seqan::append, char, seqan::TagGenerous_>(seqan::String >&, char const&, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42, inlined from ‘seqan::append >, char>(seqan::String >&, char&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1608:11, inlined from ‘seqan::_parseReadFilepath >, char>(std::basic_fstream >&, char&)seqan::String >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_parsing.h:338:9, inlined from ‘seqan::getGenomeFileNameList >(seqan::String >, seqan::StringSet >, seqan::Owner > >&, seqan::RazerSOptions >&)int’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:630:60: /usr/include/c++/14/bits/stl_algobase.h:438:30: warning: ‘memcpy’ forming offset 1 is out of the bounds [0, 1] of object ‘c’ with type ‘char’ [-Warray-bounds=] 438 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h: In function ‘seqan::getGenomeFileNameList >(seqan::String >, seqan::StringSet >, seqan::Owner > >&, seqan::RazerSOptions >&)int’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:613:10: note: ‘c’ declared here 613 | char c = _streamGet(file); | ^ In function ‘std::__copy_move::__copy_m(char const*, char const*, char*)char*’, inlined from ‘std::__copy_move_a2(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:507:30, inlined from ‘std::__copy_move_a1(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:534:42, inlined from ‘std::__copy_move_a(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:541:31, inlined from ‘std::copy(char const*, char const*, char*)char*’ at /usr/include/c++/14/bits/stl_algobase.h:637:7, inlined from ‘seqan::_arrayCopyForwardDefault(char const*, char const*, char*)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:855:16, inlined from ‘seqan::arrayCopyForward(char const*, char const*, char*)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:865:29, inlined from ‘seqan::_arrayConstructCopyPointer(char const*, char const*, char*, seqan::True)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21, inlined from ‘seqan::arrayConstructCopy(char const*, char const*, char*)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31, inlined from ‘seqan::AppendString_ >::append_ >, char const>(seqan::String >&, char const&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1368:31, inlined from ‘seqan::append, char, seqan::TagGenerous_>(seqan::String >&, char const&, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42, inlined from ‘seqan::append >, char>(seqan::String >&, char&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1608:11, inlined from ‘seqan::_parse_readShape >, char>(std::basic_fstream >&, char&, seqan::String >&)void’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/paramChooser.h:861:15, inlined from ‘seqan::parseGappedParams >, seqan::RazerSSpec >(seqan::RazerSOptions >&, std::basic_fstream >&, seqan::ParamChooserOptions&)bool’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/paramChooser.h:1068:25, inlined from ‘seqan::chooseParams >(seqan::RazerSOptions >&, seqan::ParamChooserOptions&)bool’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/paramChooser.h:1342:26: /usr/include/c++/14/bits/stl_algobase.h:438:30: warning: ‘memmove’ forming offset 1 is out of the bounds [0, 1] of object ‘c’ with type ‘char’ [-Warray-bounds=] 438 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.cpp:76: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/paramChooser.h: In function ‘seqan::chooseParams >(seqan::RazerSOptions >&, seqan::ParamChooserOptions&)bool’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/paramChooser.h:1043:10: note: ‘c’ declared here 1043 | char c = _streamGet(file); | ^ [ 72%] Building CXX object extras/apps/razers3/CMakeFiles/razers3.dir/param_tabs.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/razers3 && /usr/bin/g++ -DSEQAN_DATE=\"\" -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -std=c++11 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/razers3/CMakeFiles/razers3.dir/param_tabs.cpp.o -MF CMakeFiles/razers3.dir/param_tabs.cpp.o.d -o CMakeFiles/razers3.dir/param_tabs.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/param_tabs.cpp [ 72%] Linking CXX executable ../../../bin/razers3 cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/razers3 && /usr/bin/cmake -E cmake_link_script CMakeFiles/razers3.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -std=c++11 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/razers3.dir/razers.cpp.o CMakeFiles/razers3.dir/param_tabs.cpp.o -o ../../../bin/razers3 -lrt -L/usr/lib64 -lz -L/usr/lib64 -lbz2 make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 72%] Built target razers3 make -f extras/apps/razers3/CMakeFiles/razers3_simulate_reads.dir/build.make extras/apps/razers3/CMakeFiles/razers3_simulate_reads.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3 /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/razers3 /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/razers3/CMakeFiles/razers3_simulate_reads.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/razers3/CMakeFiles/razers3_simulate_reads.dir/build.make extras/apps/razers3/CMakeFiles/razers3_simulate_reads.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 74%] Building CXX object extras/apps/razers3/CMakeFiles/razers3_simulate_reads.dir/simulate_reads.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/razers3 && /usr/bin/g++ -DSEQAN_DATE=\"\" -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -std=c++11 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/razers3/CMakeFiles/razers3_simulate_reads.dir/simulate_reads.cpp.o -MF CMakeFiles/razers3_simulate_reads.dir/simulate_reads.cpp.o.d -o CMakeFiles/razers3_simulate_reads.dir/simulate_reads.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/simulate_reads.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/cmdparser/cmdparser.h:39, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_cmdparser.h:36, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/simulate_reads.cpp:5: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/simulate_reads.cpp:1: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/simulate_reads.cpp:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:51, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/map.h:42, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/cmdparser/cmdparser.h:37: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/file_format_mmap.h:793:9: required from ‘void seqan::assignSeq(TSeq&, const TFastaSeq&, Fastq) [with TSeq = String >; TFastaSeq = Segment >, InfixSegment>; Fastq = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 793 | resize(dst, itEnd - it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/file_format_mmap.h:1423:13: required from ‘void seqan::assignSeq(TSeq&, const TFileSeq&, const TagSelector&) [with TSeq = String >; TFileSeq = Segment >, InfixSegment>; TTagList = TagList, TagList, TagList > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1423 | assignSeq(dst, seq, TFormatTag()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io.h:1302:14: required from ‘bool seqan::loadContigs(FragmentStore&, const StringSet > >&, bool) [with TFSSpec = void; TFSConfig = FragmentStoreConfig]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1302 | assignSeq(store.contigStore[seqOfs + i].seq, multiSeqFile[i], contigFile.format); // read Genome sequence /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io.h:1323:20: required from ‘bool seqan::loadContigs(FragmentStore&, const CharString&, bool) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1323 | return loadContigs(store, fileNames, loadSeqs); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io.h:1331:20: required from ‘bool seqan::loadContigs(FragmentStore&, const TFileNames&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TFileNames = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1331 | return loadContigs(store, fileNames, true); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/simulate_reads.cpp:114:21: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 114 | if (!loadContigs(store, getArgumentValue(parser, 0)) && (stop = true)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 74%] Linking CXX executable ../../../bin/razers3_simulate_reads cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/razers3 && /usr/bin/cmake -E cmake_link_script CMakeFiles/razers3_simulate_reads.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -std=c++11 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/razers3_simulate_reads.dir/simulate_reads.cpp.o -o ../../../bin/razers3_simulate_reads -lrt -L/usr/lib64 -lz -L/usr/lib64 -lbz2 make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 74%] Built target razers3_simulate_reads make -f extras/apps/razers3/CMakeFiles/razers3_quality2prob.dir/build.make extras/apps/razers3/CMakeFiles/razers3_quality2prob.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3 /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/razers3 /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/razers3/CMakeFiles/razers3_quality2prob.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/razers3/CMakeFiles/razers3_quality2prob.dir/build.make extras/apps/razers3/CMakeFiles/razers3_quality2prob.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 75%] Building CXX object extras/apps/razers3/CMakeFiles/razers3_quality2prob.dir/quality2prob.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/razers3 && /usr/bin/g++ -DSEQAN_DATE=\"\" -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -std=c++11 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/razers3/CMakeFiles/razers3_quality2prob.dir/quality2prob.cpp.o -MF CMakeFiles/razers3_quality2prob.dir/quality2prob.cpp.o.d -o CMakeFiles/razers3_quality2prob.dir/quality2prob.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/quality2prob.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/cmdparser/cmdparser.h:39, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_cmdparser.h:36, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/quality2prob.cpp:5: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/quality2prob.cpp:1: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/quality2prob.cpp:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:62, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:33, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/quality2prob.cpp:7: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:45:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:54:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:63:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 63 | struct filterI3 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:401:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 401 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:507:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 507 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:78: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:42:48: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public ::std::binary_function < PageBucket, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:57:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:257:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 257 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:372:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 372 | struct insertBucket : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_set.h:373:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:404:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 404 | public::std::binary_function // functor for operator> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:744:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 744 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:760:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 760 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:80: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:854:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 854 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:902:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 902 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:970:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 970 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1039:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1039 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1073:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1073 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1121:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1121 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2093:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2093 | struct _qgramComp : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2112:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2112 | public ::std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:46:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 46 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:85:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 85 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:96: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:98:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 98 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:112:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 112 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:127:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:144:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:154:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:99: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:110:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 110 | public ::std::binary_function < SkewDCStream, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:143:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 143 | public ::std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:100: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:99:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 99 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:118:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:132:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 132 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:154:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:175:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 175 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:185:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 185 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:103: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:57:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:97:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 97 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:141:29: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:109: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:59:42: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:164:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, KasaiOriginal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:312:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 312 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:313:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 313 | LCP[isa - 1] = h; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:379:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 379 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:380:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 380 | LCP[i] = h | mark; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const StringSet&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:483:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 483 | for(TSize hMax = _min(getValueI2((TPair)dec), n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:484:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 484 | LCP[i] = h | mark; | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:113: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h:144:50: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:585:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 585 | public ::std::binary_function< Pair, Pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:128: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In function ‘void seqan::_storeWotdChildren(Index > >&, TSize, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:504:27: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 504 | } else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:506:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 506 | for (TDirSize d = index.sentinelBound - index.sentinelOcc; d != index.sentinelBound; ++d) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:136: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h:149:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 149 | struct RepeatLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:157: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h: In function ‘typename seqan::Iterator >::Type seqan::_upperBoundLcpe(TText&, TSA&, SearchTreeIterator, TQuery&, TDiff_, TDiff_)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1498:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1498 | for(; i && ordEqual(*t, convert(*q)); --i, ++t, ++q) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1501 | if (q == qEnd || t == tEnd || !ordGreater(*t, convert(*q))) { | ^~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:845:17: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 845 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:862:17: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 862 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:896:17: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 896 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:934:17: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 934 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:968:17: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 968 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:1009:17: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1009 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:1046:17: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1046 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:1087:17: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1087 | public std::binary_function::Type, typename Value::Type, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:1130:17: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1130 | public std::binary_function::Type, typename Value::Type, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:1174:17: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1174 | public std::binary_function::Type, typename Value::Type, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:1218:17: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1218 | public std::binary_function::Type, typename Value::Type, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:51, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/map.h:42, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/cmdparser/cmdparser.h:37: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /usr/include/c++/14/bits/stl_function.h:131:12: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /usr/include/c++/14/bits/stl_function.h:131:12: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /usr/include/c++/14/bits/stl_function.h:131:12: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_]’ /usr/include/c++/14/bits/stl_function.h:131:12: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /usr/include/c++/14/bits/stl_function.h:131:12: note: 1855 | _reserveStorage(seq, new_capacity, tag); /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45: required from ‘static typename seqan::Size::Type seqan::_Resize_String::resize_(T&, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /usr/include/c++/14/bits/stl_function.h:131:12: note: 1887 | TSize new_capacity = reserve(me, new_length, TExpand()); /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50: required from ‘typename seqan::Size >::Type seqan::resize(String&, TSize, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /usr/include/c++/14/bits/stl_function.h:131:12: note: 1952 | return _Resize_String >::resize_(me, new_length); /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18: required from ‘typename seqan::Size::Type seqan::resize(T&, TSize) [with T = String >; TSize = int; typename Size::Type = long unsigned int]’ /usr/include/c++/14/bits/stl_function.h:131:12: note: 2143 | return resize(me, new_length, typename DefaultOverflowExplicit::Type()); /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:724:19: required from ‘bool seqan::loadReads(FragmentStore&, const char*, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TRazerSOptions = RazerSOptions<>]’ /usr/include/c++/14/bits/stl_function.h:131:12: note: 724 | resize(seq, options.trimLength); /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/quality2prob.cpp:39:19: required from here /usr/include/c++/14/bits/stl_function.h:131:12: note: 39 | if (!loadReads(store, toCString(getArgumentValue(parser, 0)), options) && (stop = true)) /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = unsigned int; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = unsigned int; TExpand = TagGenerous_; typename Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45: required from ‘static typename seqan::Size::Type seqan::_Resize_String::resize_(T&, typename seqan::Size::Type) [with T = seqan::String, seqan::Alloc<> >; TExpand = seqan::Tag; typename seqan::Size::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1887 | TSize new_capacity = reserve(me, new_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50: required from ‘typename seqan::Size >::Type seqan::resize(String&, TSize, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long int; TExpand = TagGenerous_; typename Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1952 | return _Resize_String >::resize_(me, new_length); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18: required from ‘typename seqan::Size::Type seqan::resize(T&, TSize) [with T = String, Alloc<> >; TSize = long int; typename Size::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2143 | return resize(me, new_length, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/file_format_mmap.h:793:9: required from ‘void seqan::assignSeq(TSeq&, const TFastaSeq&, Fastq) [with TSeq = String, Alloc<> >; TFastaSeq = Segment >, InfixSegment>; Fastq = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 793 | resize(dst, itEnd - it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/file_format_mmap.h:1423:13: required from ‘void seqan::assignSeq(TSeq&, const TFileSeq&, const TagSelector&) [with TSeq = String, Alloc<> >; TFileSeq = Segment >, InfixSegment>; TTagList = TagList, TagList, TagList > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1423 | assignSeq(dst, seq, TFormatTag()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:835:14: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 835 | assignSeq(firstRead, multiFasta[0], format); // read the first sequence /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1444:21: required from ‘void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1444 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1465:31: required from ‘void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1465 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:849:31: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 849 | arrayConstructMove(old_array, old_array + start, seq_array); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42: required from ‘void seqan::append(String&, const TSource&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1421 | AppendString_ >::append_(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_concat_direct.h:318:11: required from ‘void seqan::appendValue(StringSet > >&, const TString2&, Tag) [with TString = String >; TString2 = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 318 | append(me.concat, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:1415:13: required from ‘typename seqan::Size::TReadStore>::Type seqan::appendRead(FragmentStore&, const TRead&, const CharString&, TId) [with TSpec = void; TConfig = FragmentStoreConfig; TRead = String >; TId = unsigned int; typename Size::TReadStore>::Type = long unsigned int; typename FragmentStore::TReadStore = String, Alloc<> >; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1415 | appendValue(me.readSeqStore, read, Generous()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:1442:19: required from ‘typename seqan::Size::TReadStore>::Type seqan::appendRead(FragmentStore&, const TRead&, const CharString&) [with TSpec = void; TConfig = FragmentStoreConfig; TRead = String >; typename Size::TReadStore>::Type = long unsigned int; typename FragmentStore::TReadStore = String, Alloc<> >; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1442 | return appendRead(me, read, name, TReadStoreElement::INVALID_ID); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:727:19: required from ‘bool seqan::loadReads(FragmentStore&, const char*, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 727 | appendRead(store, seq, seqId); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/quality2prob.cpp:39:19: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 39 | if (!loadReads(store, toCString(getArgumentValue(parser, 0)), options) && (stop = true)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1589:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1589 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveBackwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1641:30: required from ‘void seqan::arrayMoveBackward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1641 | _arrayMoveBackwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1213:26: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = SimpleType*; TSource1 = SimpleType*; TSource2 = SimpleType*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1213 | arrayMoveBackward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1660:14: required from ‘void seqan::_arrayClearSpacePointer(TValue*, size_t, size_t, size_t, const True&) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1660 | arrayMove(array_begin + keep_from, array_begin + array_length, array_begin + move_to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1681:28: required from ‘void seqan::arrayClearSpace(TValue*, size_t, size_t, size_t) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1681 | _arrayClearSpacePointer(array_begin, array_length, keep_from, move_to, typename IsSimple::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:856:28: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 856 | arrayClearSpace(seq_array + start, old_length - start, removed_size, size); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42: required from ‘void seqan::append(String&, const TSource&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1421 | AppendString_ >::append_(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_concat_direct.h:318:11: required from ‘void seqan::appendValue(StringSet > >&, const TString2&, Tag) [with TString = String >; TString2 = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 318 | append(me.concat, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:1415:13: required from ‘typename seqan::Size::TReadStore>::Type seqan::appendRead(FragmentStore&, const TRead&, const CharString&, TId) [with TSpec = void; TConfig = FragmentStoreConfig; TRead = String >; TId = unsigned int; typename Size::TReadStore>::Type = long unsigned int; typename FragmentStore::TReadStore = String, Alloc<> >; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1415 | appendValue(me.readSeqStore, read, Generous()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:1442:19: required from ‘typename seqan::Size::TReadStore>::Type seqan::appendRead(FragmentStore&, const TRead&, const CharString&) [with TSpec = void; TConfig = FragmentStoreConfig; TRead = String >; typename Size::TReadStore>::Type = long unsigned int; typename FragmentStore::TReadStore = String, Alloc<> >; CharString = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1442 | return appendRead(me, read, name, TReadStoreElement::INVALID_ID); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:727:19: required from ‘bool seqan::loadReads(FragmentStore&, const char*, TRazerSOptions&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TRazerSOptions = RazerSOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 727 | appendRead(store, seq, seqId); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/quality2prob.cpp:39:19: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 39 | if (!loadReads(store, toCString(getArgumentValue(parser, 0)), options) && (stop = true)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1621:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1621 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:64, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3/razers.h:38: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h: In member function ‘void seqan::SequenceStreamImpl_::_guessFileTypeAndFormatForReadingAndInitialize()’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:310:25: warning: this statement may fall through [-Wimplicit-fallthrough=] 310 | _fileFormat = this->_checkFormat(*_istreamReader); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:313:9: note: here 313 | case SeqIOFileType_::FILE_TYPE_AUTO: | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 75%] Linking CXX executable ../../../bin/razers3_quality2prob cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/razers3 && /usr/bin/cmake -E cmake_link_script CMakeFiles/razers3_quality2prob.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -std=c++11 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/razers3_quality2prob.dir/quality2prob.cpp.o -o ../../../bin/razers3_quality2prob -lrt -L/usr/lib64 -lz -L/usr/lib64 -lbz2 make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 75%] Built target razers3_quality2prob make -f extras/apps/rep_sep/CMakeFiles/rep_sep.dir/build.make extras/apps/rep_sep/CMakeFiles/rep_sep.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/rep_sep /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/rep_sep/CMakeFiles/rep_sep.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/rep_sep/CMakeFiles/rep_sep.dir/build.make extras/apps/rep_sep/CMakeFiles/rep_sep.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 75%] Building CXX object extras/apps/rep_sep/CMakeFiles/rep_sep.dir/rep_sep.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/rep_sep && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/rep_sep/CMakeFiles/rep_sep.dir/rep_sep.cpp.o -MF CMakeFiles/rep_sep.dir/rep_sep.cpp.o.d -o CMakeFiles/rep_sep.dir/rep_sep.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/rep_sep.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/rep_sep.cpp:27: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/rep_sep.cpp:22: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/rep_sep.cpp:29: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:69, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:44: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, const TSource&) [with TTarget = GraphCargo, AlignedReadStoreElement, void>, long unsigned int>; TSource = GraphCargo, AlignedReadStoreElement, void>, long unsigned int>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1242:11: required from ‘void seqan::assignValue(T&, TPos, const TValue&) [with T = String, AlignedReadStoreElement, void>, long unsigned int>, Alloc<> >; TValue = GraphCargo, AlignedReadStoreElement, void>, long unsigned int>; TPos = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1242 | assign(value(me, pos), _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_property.h:178:13: required from ‘void seqan::assignProperty(TPropertyMap&, TDescriptor, TValue) [with TPropertyMap = String, AlignedReadStoreElement, void>, long unsigned int>, Alloc<> >; TDescriptor = unsigned int; TValue = GraphCargo, AlignedReadStoreElement, void>, long unsigned int>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 178 | assignValue(pm, _getId(d), val); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/rgraph_base.h:191:23: required from ‘GraphCargo& registerRead(ReadGraph&, typename ReadGraph::TId) [with TColumnAlphabet = seqan::Triple; TAlignedReadStoreElement = seqan::AlignedReadStoreElement, void>; TPosition = long unsigned int; typename ReadGraph::TId = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 191 | assignProperty(me.vertexCargo, vd, new_cargo); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/rgraph_construction.h:82:59: required from ‘void construct(ReadGraph&, const seqan::String > >&, const seqan::FragmentStore&, TId) [with TColumnAlphabet = seqan::Triple; TAlignedReadStoreElement = seqan::AlignedReadStoreElement, void>; TPosition = long unsigned int; TSpec = void; TConfig = seqan::FragmentStoreConfig; TId = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 82 | TGraphCargo & new_cargo = registerRead(me, _readId(value(colIter))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/rep_sep.cpp:212:14: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 212 | construct(rgraph, candidates, fragStore, options.contig); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:142:12: warning: implicitly-declared ‘GraphCargo, seqan::AlignedReadStoreElement, void>, long unsigned int>& GraphCargo, seqan::AlignedReadStoreElement, void>, long unsigned int>::operator=(const GraphCargo, seqan::AlignedReadStoreElement, void>, long unsigned int>&)’ is deprecated [-Wdeprecated-copy] 142 | target = source; | ~~~~~~~^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/rgraph.h:32, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/rep_sep.cpp:34: /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/rgraph_base.h:44:5: note: because ‘GraphCargo, seqan::AlignedReadStoreElement, void>, long unsigned int>’ has user-provided ‘GraphCargo::GraphCargo(const GraphCargo&) [with TColumnAlphabet = seqan::Triple; TAlignedReadStoreElement = seqan::AlignedReadStoreElement, void>; TPosition = long unsigned int]’ 44 | GraphCargo(GraphCargo const& other) | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/rgraph_base.h:44:5: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/rgraph_base.h:44:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/rgraph_base.h:44:5: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/rgraph_base.h:44:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/rgraph_base.h:44:5: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/rgraph_base.h:44:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/rgraph_base.h:44:5: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/rgraph_base.h:44:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/rgraph_base.h:44:5: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/rgraph_base.h:44:5: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:131:16: required from ‘seqan::String >::String(const seqan::String >&) [with TValue = seqan::SimpleType; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/rgraph_base.h:44:5: note: 131 | reserve(*this, std::min(capacity(source), computeGenerousCapacity(source, length(source))), Exact()); /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/rgraph_base.h:44:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/assembly_parser.h:186:27: required from ‘void parseContig(const seqan::FragmentStore&, TId, seqan::String&, TScannerType) [with TSpec = void; TConfig = seqan::FragmentStoreConfig; TId = int; TAnnotatedCandidateColumn = seqan::Pair > >; TScannerType = SimpleColumn]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/rgraph_base.h:44:5: note: 186 | String ungapped_seq = fragStore.readSeqStore[iter_cr->readId]; /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/rgraph_base.h:44:5: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/rep_sep.cpp:198:16: required from here /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/rgraph_base.h:44:5: note: 198 | parseContig(fragStore, options.contig, candidates, algoSpec); /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/rgraph_base.h:44:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1444:21: required from ‘void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1444 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1465:31: required from ‘void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1465 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:849:31: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 849 | arrayConstructMove(old_array, old_array + start, seq_array); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: required from ‘typename seqan::Size >::Type seqan::_clearSpace(String&, TSize, TPosition, TPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long unsigned int; TPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1014 | return ClearSpaceStringBase_ >::_clearSpace_(me, size, pos_begin, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1367:67: required from ‘static void seqan::AppendString_::append_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const seqan::String >; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1367 | typename Size::Type part_length = _clearSpace(target, length(source), target_length, target_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42: required from ‘void seqan::append(String&, const TSource&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1421 | AppendString_ >::append_(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_concat_direct.h:318:11: required from ‘void seqan::appendValue(StringSet > >&, const TString2&, Tag) [with TString = String >; TString2 = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 318 | append(me.concat, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:1396:13: required from ‘typename seqan::Size::TReadStore>::Type seqan::appendRead(FragmentStore&, const TRead&, TId) [with TSpec = void; TConfig = FragmentStoreConfig; TRead = String >; TId = unsigned int; typename Size::TReadStore>::Type = long unsigned int; typename FragmentStore::TReadStore = String, Alloc<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1396 | appendValue(me.readSeqStore, read, Generous()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io.h:452:15: required from ‘int seqan::read(TFile&, FragmentStore&, Amos) [with TFile = _IO_FILE*; TSpec = void; TConfig = FragmentStoreConfig; Amos = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 452 | appendRead(fragStore, seq, matePairId); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/rep_sep.cpp:155:9: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 155 | read(strmReads, fragStore, Amos()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1589:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1589 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveBackwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1641:30: required from ‘void seqan::arrayMoveBackward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1641 | _arrayMoveBackwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1213:26: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = SimpleType*; TSource1 = SimpleType*; TSource2 = SimpleType*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1213 | arrayMoveBackward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1660:14: required from ‘void seqan::_arrayClearSpacePointer(TValue*, size_t, size_t, size_t, const True&) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1660 | arrayMove(array_begin + keep_from, array_begin + array_length, array_begin + move_to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1681:28: required from ‘void seqan::arrayClearSpace(TValue*, size_t, size_t, size_t) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1681 | _arrayClearSpacePointer(array_begin, array_length, keep_from, move_to, typename IsSimple::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:856:28: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1367:67: required from ‘static void seqan::AppendString_::append_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const seqan::String >; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1367 | typename Size::Type part_length = _clearSpace(target, length(source), target_length, target_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42: required from ‘void seqan::append(String&, const TSource&, Tag) [with TTargetValue = SimpleType; TTargetSpec = Alloc<>; TSource = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1421 | AppendString_ >::append_(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_concat_direct.h:318:11: required from ‘void seqan::appendValue(StringSet > >&, const TString2&, Tag) [with TString = String >; TString2 = String >; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 318 | append(me.concat, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:1396:13: required from ‘typename seqan::Size::TReadStore>::Type seqan::appendRead(FragmentStore&, const TRead&, TId) [with TSpec = void; TConfig = FragmentStoreConfig; TRead = String >; TId = unsigned int; typename Size::TReadStore>::Type = long unsigned int; typename FragmentStore::TReadStore = String, Alloc<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1396 | appendValue(me.readSeqStore, read, Generous()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_io.h:452:15: required from ‘int seqan::read(TFile&, FragmentStore&, Amos) [with TFile = _IO_FILE*; TSpec = void; TConfig = FragmentStoreConfig; Amos = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 452 | appendRead(fragStore, seq, matePairId); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/rep_sep.cpp:155:9: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 155 | read(strmReads, fragStore, Amos()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1621:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1621 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Triple; TSource = Triple]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:268:11: required from ‘void seqan::move(TTarget&, TSource&) [with TTarget = Triple; TSource = Triple]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 268 | assign(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1056:13: required from ‘void seqan::_arrayMoveForwardDefault(TSource1, TSource2, TTarget) [with TTarget = Triple*; TSource1 = Triple*; TSource2 = Triple*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1056 | move(*target_begin, *source_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1600:29: required from ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, False) [with TValue = Triple]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1600 | _arrayMoveForwardDefault(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = Triple]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1211:25: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = Triple*; TSource1 = Triple*; TSource2 = Triple*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1211 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1295:22: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: required from ‘typename seqan::Size >::Type seqan::_clearSpace(String&, TSize, TPosition, TPosition, Tag) [with TValue = Triple; TSpec = Alloc<>; TSize = long unsigned int; TPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1014 | return ClearSpaceStringBase_ >::_clearSpace_(me, size, pos_begin, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1367:67: required from ‘static void seqan::AppendString_::append_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const seqan::Triple; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1367 | typename Size::Type part_length = _clearSpace(target, length(source), target_length, target_length, TExpand()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1421:42: required from ‘void seqan::append(String&, const TSource&, Tag) [with TTargetValue = Triple; TTargetSpec = Alloc<>; TSource = Triple; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1421 | AppendString_ >::append_(target, source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1626:11: required from ‘void seqan::append(TTarget&, const TSource&) [with TTarget = String >; TSource = Triple]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1626 | append(target, source, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/assembly_parser.h:197:19: required from ‘void parseContig(const seqan::FragmentStore&, TId, seqan::String&, TScannerType) [with TSpec = void; TConfig = seqan::FragmentStoreConfig; TId = int; TAnnotatedCandidateColumn = seqan::Pair > >; TScannerType = SimpleColumn]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 197 | append(column, TAssignedReadChar(_sequenceCharacter(gapped_read[p - offset]), iter_cr->readId, _positionInRead(gapped_read[p - offset]))); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/rep_sep.cpp:198:16: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 198 | parseContig(fragStore, options.contig, candidates, algoSpec); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘constexpr seqan::Triple& seqan::Triple::operator=(const seqan::Triple&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:57, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:71: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_base.h:162:12: note: because ‘seqan::Triple’ has user-provided ‘seqan::Triple::Triple(const seqan::Triple&) [with T1 = char; T2 = unsigned int; T3 = long unsigned int; TSpec = void]’ 162 | inline Triple(Triple const & _p) | ^~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 77%] Linking CXX executable ../../../bin/rep_sep cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/rep_sep && /usr/bin/cmake -E cmake_link_script CMakeFiles/rep_sep.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/rep_sep.dir/rep_sep.cpp.o -o ../../../bin/rep_sep -lrt In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘obtainId’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_idmanager.h:205:9, inlined from ‘addVertex’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_undirected.h:394:33, inlined from ‘registerRead’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/rgraph_base.h:187:41, inlined from ‘construct’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep/rgraph_construction.h:82:59: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551608’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘construct’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 77%] Built target rep_sep make -f extras/apps/searchjoin/CMakeFiles/search.dir/build.make extras/apps/searchjoin/CMakeFiles/search.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/searchjoin /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/searchjoin/CMakeFiles/search.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/searchjoin/CMakeFiles/search.dir/build.make extras/apps/searchjoin/CMakeFiles/search.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 77%] Building CXX object extras/apps/searchjoin/CMakeFiles/search.dir/search.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/searchjoin && /usr/bin/g++ -DSEQAN_DATE=\"\" -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_REVISION=\"\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/searchjoin/CMakeFiles/search.dir/search.cpp.o -MF CMakeFiles/search.dir/search.cpp.o.d -o CMakeFiles/search.dir/search.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:53: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:51: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:62, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:43, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:56: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:45:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:54:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:63:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 63 | struct filterI3 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:401:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 401 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:507:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 507 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:78: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:42:48: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public ::std::binary_function < PageBucket, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:57:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:257:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 257 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:372:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 372 | struct insertBucket : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:44: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_set.h:373:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:404:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 404 | public::std::binary_function // functor for operator> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:744:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 744 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:760:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 760 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:80: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:854:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 854 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:902:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 902 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:970:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 970 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1039:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1039 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1073:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1073 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1121:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1121 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2093:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2093 | struct _qgramComp : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2112:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2112 | public ::std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:46:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 46 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:85:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 85 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:96: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:98:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 98 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:112:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 112 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:127:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:144:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:154:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:99: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:110:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 110 | public ::std::binary_function < SkewDCStream, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:143:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 143 | public ::std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:100: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:99:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 99 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:118:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:132:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 132 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:154:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:175:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 175 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:185:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 185 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:103: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:57:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:97:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 97 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:141:29: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:109: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:59:42: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:164:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, KasaiOriginal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:312:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 312 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:313:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 313 | LCP[isa - 1] = h; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:379:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 379 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:380:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 380 | LCP[i] = h | mark; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const StringSet&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:483:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 483 | for(TSize hMax = _min(getValueI2((TPair)dec), n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:484:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 484 | LCP[i] = h | mark; | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:113: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h:144:50: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:585:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 585 | public ::std::binary_function< Pair, Pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:128: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In function ‘void seqan::_storeWotdChildren(Index > >&, TSize, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:504:27: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 504 | } else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:506:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 506 | for (TDirSize d = index.sentinelBound - index.sentinelOcc; d != index.sentinelBound; ++d) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:136: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h:149:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 149 | struct RepeatLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:157: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h: In function ‘typename seqan::Iterator >::Type seqan::_upperBoundLcpe(TText&, TSA&, SearchTreeIterator, TQuery&, TDiff_, TDiff_)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1498:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1498 | for(; i && ordEqual(*t, convert(*q)); --i, ++t, ++q) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1501 | if (q == qEnd || t == tEnd || !ordGreater(*t, convert(*q))) { | ^~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h: In instantiation of ‘void build(DbIndex, TDbIndexSpec>&, Db&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndexSpec = seqan::IndexSa >; TDbIndexSpec = void; TDbSpec = void; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:336:10: required from ‘void index(DbFinder&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 336 | build(dbFinder.dbIndex, dbFinder.db, Default()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:280:10: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 280 | index(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:780:19: warning: implicitly-declared ‘seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >&)’ is deprecated [-Wdeprecated-copy] 780 | dbIndex.index = TIndex(db.text); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index_extras.h:54, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:44: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: because ‘seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = seqan::Tag]’ 86 | Index(Index const & other) : | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h: In instantiation of ‘void buildQuery(DbIndex >, seqan::Tag >&, Db&, TSeedLength) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndexSpec = seqan::Tag; TDbSpec = seqan::Tag; TSeedLength = unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:366:15: required from ‘void prepare(DbFinder&, Db&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 366 | buildQuery(dbFinder.queryIndex, value(dbFinder.query), dbFinder.minSeedLength); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:321:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 321 | prepare(searcher, query); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:902:32: warning: implicitly-declared ‘seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >&)’ is deprecated [-Wdeprecated-copy] 902 | dbIndex.index[seedSet] = TIndex(db.text); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: because ‘seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = seqan::Tag]’ 86 | Index(Index const & other) : | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h: In instantiation of ‘void build(DbIndex, TDbIndexSpec>&, Db&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndexSpec = seqan::IndexSa >; TDbIndexSpec = void; TDbSpec = void; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:336:10: required from ‘void index(DbFinder&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 336 | build(dbFinder.dbIndex, dbFinder.db, Default()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:280:10: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 280 | index(searcher); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:520:39: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 520 | return runSearcher(options, TDbDna(), TDbDnaSaSmall(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:780:19: warning: implicitly-declared ‘seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >&)’ is deprecated [-Wdeprecated-copy] 780 | dbIndex.index = TIndex(db.text); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: because ‘seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = seqan::Tag]’ 86 | Index(Index const & other) : | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h: In instantiation of ‘void buildQuery(DbIndex >, seqan::Tag >&, Db&, TSeedLength) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndexSpec = seqan::Tag; TDbSpec = seqan::Tag; TSeedLength = unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:366:15: required from ‘void prepare(DbFinder&, Db&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 366 | buildQuery(dbFinder.queryIndex, value(dbFinder.query), dbFinder.minSeedLength); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:321:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 321 | prepare(searcher, query); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:520:39: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 520 | return runSearcher(options, TDbDna(), TDbDnaSaSmall(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:902:32: warning: implicitly-declared ‘seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >&)’ is deprecated [-Wdeprecated-copy] 902 | dbIndex.index[seedSet] = TIndex(db.text); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: because ‘seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = seqan::Tag]’ 86 | Index(Index const & other) : | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h: In instantiation of ‘void build(DbIndex, TDbIndexSpec>&, Db&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndexSpec = seqan::IndexSa >; TDbIndexSpec = void; TDbSpec = void; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:336:10: required from ‘void index(DbFinder&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 336 | build(dbFinder.dbIndex, dbFinder.db, Default()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:403:10: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 403 | index(searcher); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:537:39: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 537 | return runSearcher(options, TDbGeo(), TDbGeoSaHuge(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:780:19: warning: implicitly-declared ‘seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >&)’ is deprecated [-Wdeprecated-copy] 780 | dbIndex.index = TIndex(db.text); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: because ‘seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag]’ 86 | Index(Index const & other) : | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h: In instantiation of ‘void buildQuery(DbIndex >, seqan::Tag >&, Db&, TSeedLength) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndexSpec = seqan::Tag; TDbSpec = seqan::Tag; TSeedLength = unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:366:15: required from ‘void prepare(DbFinder&, Db&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 366 | buildQuery(dbFinder.queryIndex, value(dbFinder.query), dbFinder.minSeedLength); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:447:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 447 | prepare(searcher, queryLong); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:537:39: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 537 | return runSearcher(options, TDbGeo(), TDbGeoSaHuge(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:902:32: warning: implicitly-declared ‘seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >&)’ is deprecated [-Wdeprecated-copy] 902 | dbIndex.index[seedSet] = TIndex(db.text); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: because ‘seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag]’ 86 | Index(Index const & other) : | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h: In instantiation of ‘void build(DbIndex, TDbIndexSpec>&, Db&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndexSpec = seqan::IndexSa >; TDbIndexSpec = void; TDbSpec = void; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:336:10: required from ‘void index(DbFinder&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 336 | build(dbFinder.dbIndex, dbFinder.db, Default()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:403:10: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 403 | index(searcher); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:544:39: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 544 | return runSearcher(options, TDbGeo(), TDbGeoSaSmall(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:780:19: warning: implicitly-declared ‘seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >&)’ is deprecated [-Wdeprecated-copy] 780 | dbIndex.index = TIndex(db.text); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: because ‘seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag]’ 86 | Index(Index const & other) : | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h: In instantiation of ‘void buildQuery(DbIndex >, seqan::Tag >&, Db&, TSeedLength) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndexSpec = seqan::Tag; TDbSpec = seqan::Tag; TSeedLength = unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:366:15: required from ‘void prepare(DbFinder&, Db&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 366 | buildQuery(dbFinder.queryIndex, value(dbFinder.query), dbFinder.minSeedLength); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:447:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 447 | prepare(searcher, queryLong); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:544:39: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 544 | return runSearcher(options, TDbGeo(), TDbGeoSaSmall(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:902:32: warning: implicitly-declared ‘seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >&)’ is deprecated [-Wdeprecated-copy] 902 | dbIndex.index[seedSet] = TIndex(db.text); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: because ‘seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag]’ 86 | Index(Index const & other) : | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String, Alloc > >; TSpec = Owner >; TShape = Shape, UngappedShape<0> >; TDir = String >; TBucketMap = Nothing; TStepSize = unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1639:24: required from ‘void seqan::createQGramIndex(TSA&, TDir&, TBucketMap&, const TText&, TShape&, TStepSize) [with TSA = String >, Alloc<> >; TDir = String >; TBucketMap = Nothing; TText = StringSet, Alloc > >, Owner > >; TShape = Shape, UngappedShape<0> >; TStepSize = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 1639 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, stepSize, False()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:804:21: required from ‘void build(DbIndex, TDbIndexSpec>&, Db&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndexSpec = seqan::IndexSa >; TDbIndexSpec = void; TDbSpec = void; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 804 | createQGramIndex(sa, dir, nothing, text, shape, stepSize); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:336:10: required from ‘void index(DbFinder&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 336 | build(dbFinder.dbIndex, dbFinder.db, Default()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:280:10: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 280 | index(searcher); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:55, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:71: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:126: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h: In instantiation of ‘void seqan::_historyClear(Iter > >&) [with TIndex = Index, Alloc > >, Owner > >, IndexSa > >; TSpec = Preorder]’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:292:18: required from ‘void seqan::goRoot(Iter >, VSTree >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag; TSpec = TopDown<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 292 | _historyClear(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:266:10: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 266 | goRoot(*this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: warning: implicitly-declared ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ is deprecated [-Wdeprecated-copy] 2147 | it._parentDesc = value(it); | ~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA >’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = seqan::SimpleType]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:103:8: warning: implicitly-declared ‘constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)’ is deprecated [-Wdeprecated-copy] 103 | struct VertexSA : public VertexEsa | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:125: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:290:17: note: because ‘seqan::VertexEsa’ has user-provided ‘seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]’ 290 | VertexEsa(VertexEsa const &other): | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: synthesized method ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ first required here 2147 | it._parentDesc = value(it); | ~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String, Alloc > >; TSpec = Owner >; TShape = Shape, UngappedShape<0> >; TDir = String >; TBucketMap = Nothing; TStepSize = unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1639:24: required from ‘void seqan::createQGramIndex(TSA&, TDir&, TBucketMap&, const TText&, TShape&, TStepSize) [with TSA = String >, Alloc<> >; TDir = String >; TBucketMap = Nothing; TText = StringSet, Alloc > >, Owner > >; TShape = Shape, UngappedShape<0> >; TStepSize = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: 1639 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, stepSize, False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:804:21: required from ‘void build(DbIndex, TDbIndexSpec>&, Db&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndexSpec = seqan::IndexSa >; TDbIndexSpec = void; TDbSpec = void; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: 804 | createQGramIndex(sa, dir, nothing, text, shape, stepSize); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:336:10: required from ‘void index(DbFinder&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: 336 | build(dbFinder.dbIndex, dbFinder.db, Default()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:280:10: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: 280 | index(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:520:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: 520 | return runSearcher(options, TDbDna(), TDbDnaSaSmall(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:56: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h: In instantiation of ‘void seqan::_historyClear(Iter > >&) [with TIndex = Index, Alloc > >, Owner > >, IndexSa > >; TSpec = Preorder]’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:292:18: required from ‘void seqan::goRoot(Iter >, VSTree >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag; TSpec = TopDown<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 292 | _historyClear(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:266:10: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 266 | goRoot(*this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:520:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 520 | return runSearcher(options, TDbDna(), TDbDnaSaSmall(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: warning: implicitly-declared ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ is deprecated [-Wdeprecated-copy] 2147 | it._parentDesc = value(it); | ~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA >’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = seqan::SimpleType]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String > >; TSpec = Owner >; TShape = Shape >; TDir = String >; TBucketMap = Nothing; TStepSize = unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1639:24: required from ‘void seqan::createQGramIndex(TSA&, TDir&, TBucketMap&, const TText&, TShape&, TStepSize) [with TSA = String >, Alloc<> >; TDir = String >; TBucketMap = Nothing; TText = StringSet > >, Owner > >; TShape = Shape >; TStepSize = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 1639 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, stepSize, False()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:804:21: required from ‘void build(DbIndex, TDbIndexSpec>&, Db&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndexSpec = seqan::IndexSa >; TDbIndexSpec = void; TDbSpec = void; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 804 | createQGramIndex(sa, dir, nothing, text, shape, stepSize); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:336:10: required from ‘void index(DbFinder&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 336 | build(dbFinder.dbIndex, dbFinder.db, Default()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:403:10: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 403 | index(searcher); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:537:39: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 537 | return runSearcher(options, TDbGeo(), TDbGeoSaHuge(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h: In instantiation of ‘void seqan::_historyClear(Iter > >&) [with TIndex = Index > >, Owner > >, IndexSa > >; TSpec = Preorder]’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:292:18: required from ‘void seqan::goRoot(Iter >, VSTree >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag; TSpec = TopDown<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 292 | _historyClear(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:266:10: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 266 | goRoot(*this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:537:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 537 | return runSearcher(options, TDbGeo(), TDbGeoSaHuge(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: warning: implicitly-declared ‘constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)’ is deprecated [-Wdeprecated-copy] 2147 | it._parentDesc = value(it); | ~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String > >; TSpec = Owner >; TShape = Shape >; TDir = String >; TBucketMap = Nothing; TStepSize = unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1639:24: required from ‘void seqan::createQGramIndex(TSA&, TDir&, TBucketMap&, const TText&, TShape&, TStepSize) [with TSA = String >, Alloc<> >; TDir = String >; TBucketMap = Nothing; TText = StringSet > >, Owner > >; TShape = Shape >; TStepSize = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 1639 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, stepSize, False()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:804:21: required from ‘void build(DbIndex, TDbIndexSpec>&, Db&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndexSpec = seqan::IndexSa >; TDbIndexSpec = void; TDbSpec = void; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 804 | createQGramIndex(sa, dir, nothing, text, shape, stepSize); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:336:10: required from ‘void index(DbFinder&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 336 | build(dbFinder.dbIndex, dbFinder.db, Default()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:403:10: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 403 | index(searcher); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:544:39: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 544 | return runSearcher(options, TDbGeo(), TDbGeoSaSmall(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h: In instantiation of ‘void seqan::_historyClear(Iter > >&) [with TIndex = Index > >, Owner > >, IndexSa > >; TSpec = Preorder]’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:292:18: required from ‘void seqan::goRoot(Iter >, VSTree >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag; TSpec = TopDown<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 292 | _historyClear(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:266:10: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 266 | goRoot(*this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:544:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 544 | return runSearcher(options, TDbGeo(), TDbGeoSaSmall(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: warning: implicitly-declared ‘constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)’ is deprecated [-Wdeprecated-copy] 2147 | it._parentDesc = value(it); | ~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_iterator.h:65, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:86: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment, seqan::Alloc > >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1634:47: required from ‘unsigned int seqan::_computeEditDistanceBanded(const TSeq1&, const TSeq2&, unsigned int) [with TSeq1 = Segment, Alloc > >, InfixSegment>; TSeq2 = Segment, Alloc > >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 1634 | typename Iterator::Type seq1Iter = begin(seq1, Rooted()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/verifier.h:136:52: required from ‘bool _verify(Verifier&, typename seqan::Size >::Type, typename seqan::Size >::Type, TDelegate&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >; typename seqan::Size >::Type = unsigned int; typename seqan::Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 136 | TErrors errors = _computeEditDistanceBanded(text1, text2, maxErrors); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/verifier.h:78:23: required from ‘bool Verifier::operator()(typename seqan::Size >::Type, typename seqan::Size >::Type, TDelegate&) [with TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >; TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = seqan::Tag; typename seqan::Size >::Type = unsigned int; typename seqan::Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 78 | return _verify(*this, dbId, queryId, delegate); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:802:30: required from ‘void execute(DbFinder, TDelegate, seqan::Tag >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Nothing; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 802 | dbFinder.verifier(dbId, queryId, dbFinder.delegate); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Nothing; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:506:31: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 506 | return runSearcher(options, TDbDna(), Nothing(), Online(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:147:15: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc > >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc > >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 147 | : data_container(other_.data_container), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:93, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:52: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc > >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc > >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h: In instantiation of ‘void seqan::_clear(Iter >&) [with TIndex = Index, Alloc > >, Owner > >, IndexSa > >; TSpec = TopDown<>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2751:9: required from ‘void seqan::clear(Iter >&) [with TIndex = Index, Alloc > >, Owner > >, IndexSa > >; TSpec = TopDown<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2751 | _clear(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:293:10: required from ‘void seqan::goRoot(Iter >, VSTree >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag; TSpec = TopDown<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 293 | clear(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:266:10: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 266 | goRoot(*this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2745:27: warning: implicitly-declared ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ is deprecated [-Wdeprecated-copy] 2745 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA >’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = seqan::SimpleType]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h: In instantiation of ‘bool seqan::_moveIteratorsRight(Finder2, Index, Backtracking, TSpec> >&, const StageExact_&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TSpec = Tag]’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:587:28: required from ‘bool seqan::_nextState(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageExact_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 587 | if (_moveIteratorsRight(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1277:38: required from ‘void seqan::_find(Finder2, Index, Backtracking >&, TDelegate&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageExact_; TDelegate = DbFinder, Alloc > >, Owner > >, Index, Alloc > >, Owner > >, IndexSa > >, Tag, Writer, Alloc > >, Owner > >, void>, Db, Alloc > >, Owner > >, Tag >, Tag >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 1277 | while (_nextState(finder, TStage())); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1254:14: required from ‘void seqan::_find(Finder2, Index, Backtracking >&, TDelegate&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_; TDelegate = DbFinder, Alloc > >, Owner > >, Index, Alloc > >, Owner > >, IndexSa > >, Tag, Writer, Alloc > >, Owner > >, void>, Db, Alloc > >, Owner > >, Tag >, Tag >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 1254 | _find(finder, delegate, StageExact_()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:603:14: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 603 | _find(finderExt, dbFinder, StageInitial_()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:244:15: warning: implicitly-declared ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ is deprecated [-Wdeprecated-copy] 244 | class Iter< TIndex, VSTree< TopDown > > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA >’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = seqan::SimpleType]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:244:15: warning: implicitly-declared ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ is deprecated [-Wdeprecated-copy] 244 | class Iter< TIndex, VSTree< TopDown > > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA >’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = seqan::SimpleType]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index_extras.h:65: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: synthesized method ‘seqan::Iter, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >& seqan::Iter, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >::operator=(const seqan::Iter, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >&)’ first required here 651 | back(finder.textStack) = finder.textStack[length(finder.textStack) - 2]; | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h: In instantiation of ‘void seqan::_clear(Iter >&) [with TIndex = Index, Alloc > >, Owner > >, IndexSa > >; TSpec = TopDown<>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2751:9: required from ‘void seqan::clear(Iter >&) [with TIndex = Index, Alloc > >, Owner > >, IndexSa > >; TSpec = TopDown<>]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: 2751 | _clear(it); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:293:10: required from ‘void seqan::goRoot(Iter >, VSTree >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag; TSpec = TopDown<>]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: 293 | clear(it); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:266:10: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: 266 | goRoot(*this); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: | ~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:520:39: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: 520 | return runSearcher(options, TDbDna(), TDbDnaSaSmall(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2745:27: warning: implicitly-declared ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ is deprecated [-Wdeprecated-copy] 2745 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA >’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = seqan::SimpleType]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h: In instantiation of ‘bool seqan::_moveIteratorsRight(Finder2, Index, Backtracking, TSpec> >&, const StageExact_&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TSpec = Tag]’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:587:28: required from ‘bool seqan::_nextState(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageExact_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 587 | if (_moveIteratorsRight(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1277:38: required from ‘void seqan::_find(Finder2, Index, Backtracking >&, TDelegate&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageExact_; TDelegate = DbFinder, Alloc > >, Owner > >, Index, Alloc > >, Owner > >, IndexSa > >, Tag, Writer, Alloc > >, Owner > >, void>, Db, Alloc > >, Owner > >, Tag >, Tag >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 1277 | while (_nextState(finder, TStage())); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1254:14: required from ‘void seqan::_find(Finder2, Index, Backtracking >&, TDelegate&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_; TDelegate = DbFinder, Alloc > >, Owner > >, Index, Alloc > >, Owner > >, IndexSa > >, Tag, Writer, Alloc > >, Owner > >, void>, Db, Alloc > >, Owner > >, Tag >, Tag >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 1254 | _find(finder, delegate, StageExact_()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:603:14: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 603 | _find(finderExt, dbFinder, StageInitial_()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:520:39: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 520 | return runSearcher(options, TDbDna(), TDbDnaSaSmall(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:244:15: warning: implicitly-declared ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ is deprecated [-Wdeprecated-copy] 244 | class Iter< TIndex, VSTree< TopDown > > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA >’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = seqan::SimpleType]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:244:15: warning: implicitly-declared ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ is deprecated [-Wdeprecated-copy] 244 | class Iter< TIndex, VSTree< TopDown > > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA >’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = seqan::SimpleType]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: synthesized method ‘seqan::Iter, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >& seqan::Iter, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >::operator=(const seqan::Iter, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >&)’ first required here 651 | back(finder.textStack) = finder.textStack[length(finder.textStack) - 2]; | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment > >, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1634:47: required from ‘unsigned int seqan::_computeEditDistanceBanded(const TSeq1&, const TSeq2&, unsigned int) [with TSeq1 = Segment > >, InfixSegment>; TSeq2 = Segment > >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: 1634 | typename Iterator::Type seq1Iter = begin(seq1, Rooted()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/verifier.h:136:52: required from ‘bool _verify(Verifier&, typename seqan::Size >::Type, typename seqan::Size >::Type, TDelegate&) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >; typename seqan::Size >::Type = unsigned int; typename seqan::Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: 136 | TErrors errors = _computeEditDistanceBanded(text1, text2, maxErrors); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/verifier.h:78:23: required from ‘bool Verifier::operator()(typename seqan::Size >::Type, typename seqan::Size >::Type, TDelegate&) [with TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >; TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; typename seqan::Size >::Type = unsigned int; typename seqan::Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: 78 | return _verify(*this, dbId, queryId, delegate); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:802:30: required from ‘void execute(DbFinder, TDelegate, seqan::Tag >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Nothing; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: 802 | dbFinder.verifier(dbId, queryId, dbFinder.delegate); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Nothing; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:530:31: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: 530 | return runSearcher(options, TDbGeo(), Nothing(), Online(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:147:15: warning: implicitly-declared ‘constexpr seqan::Segment > >, seqan::InfixSegment>::Segment(const seqan::Segment > >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 147 | : data_container(other_.data_container), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment > >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String > >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h: In instantiation of ‘void seqan::_clear(Iter >&) [with TIndex = Index > >, Owner > >, IndexSa > >; TSpec = TopDown<>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2751:9: required from ‘void seqan::clear(Iter >&) [with TIndex = Index > >, Owner > >, IndexSa > >; TSpec = TopDown<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2751 | _clear(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:293:10: required from ‘void seqan::goRoot(Iter >, VSTree >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag; TSpec = TopDown<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 293 | clear(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:266:10: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 266 | goRoot(*this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:537:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 537 | return runSearcher(options, TDbGeo(), TDbGeoSaHuge(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2745:27: warning: implicitly-declared ‘constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)’ is deprecated [-Wdeprecated-copy] 2745 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h: In instantiation of ‘void seqan::_clear(Iter >&) [with TIndex = Index > >, Owner > >, IndexSa > >; TSpec = TopDown<>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2751:9: required from ‘void seqan::clear(Iter >&) [with TIndex = Index > >, Owner > >, IndexSa > >; TSpec = TopDown<>]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 2751 | _clear(it); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:293:10: required from ‘void seqan::goRoot(Iter >, VSTree >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag; TSpec = TopDown<>]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 293 | clear(it); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:266:10: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 266 | goRoot(*this); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:544:39: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 544 | return runSearcher(options, TDbGeo(), TDbGeoSaSmall(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2745:27: warning: implicitly-declared ‘constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)’ is deprecated [-Wdeprecated-copy] 2745 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment, Alloc > >, InfixSegment>; typename Iterator >::Type = Iter, Alloc > >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment, Alloc > >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc > >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1634:63: required from ‘unsigned int seqan::_computeEditDistanceBanded(const TSeq1&, const TSeq2&, unsigned int) [with TSeq1 = Segment, Alloc > >, InfixSegment>; TSeq2 = Segment, Alloc > >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 1634 | typename Iterator::Type seq1Iter = begin(seq1, Rooted()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/verifier.h:136:52: required from ‘bool _verify(Verifier&, typename seqan::Size >::Type, typename seqan::Size >::Type, TDelegate&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >; typename seqan::Size >::Type = unsigned int; typename seqan::Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 136 | TErrors errors = _computeEditDistanceBanded(text1, text2, maxErrors); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/verifier.h:78:23: required from ‘bool Verifier::operator()(typename seqan::Size >::Type, typename seqan::Size >::Type, TDelegate&) [with TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >; TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = seqan::Tag; typename seqan::Size >::Type = unsigned int; typename seqan::Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 78 | return _verify(*this, dbId, queryId, delegate); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:802:30: required from ‘void execute(DbFinder, TDelegate, seqan::Tag >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Nothing; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 802 | dbFinder.verifier(dbId, queryId, dbFinder.delegate); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Nothing; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:506:31: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 506 | return runSearcher(options, TDbDna(), Nothing(), Online(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc > >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc > >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 541 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc > >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc > >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc > >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc > >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment > >, InfixSegment>; typename Iterator >::Type = Iter > >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment > >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter > >, InfixSegment>, AdaptorIterator > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1634:63: required from ‘unsigned int seqan::_computeEditDistanceBanded(const TSeq1&, const TSeq2&, unsigned int) [with TSeq1 = Segment > >, InfixSegment>; TSeq2 = Segment > >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1634 | typename Iterator::Type seq1Iter = begin(seq1, Rooted()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/verifier.h:136:52: required from ‘bool _verify(Verifier&, typename seqan::Size >::Type, typename seqan::Size >::Type, TDelegate&) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >; typename seqan::Size >::Type = unsigned int; typename seqan::Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 136 | TErrors errors = _computeEditDistanceBanded(text1, text2, maxErrors); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/verifier.h:78:23: required from ‘bool Verifier::operator()(typename seqan::Size >::Type, typename seqan::Size >::Type, TDelegate&) [with TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >; TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; typename seqan::Size >::Type = unsigned int; typename seqan::Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 78 | return _verify(*this, dbId, queryId, delegate); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:802:30: required from ‘void execute(DbFinder, TDelegate, seqan::Tag >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Nothing; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 802 | dbFinder.verifier(dbId, queryId, dbFinder.delegate); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Nothing; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:530:31: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 530 | return runSearcher(options, TDbGeo(), Nothing(), Online(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: warning: implicitly-declared ‘constexpr seqan::Segment > >, seqan::InfixSegment>::Segment(const seqan::Segment > >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 541 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment > >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String > >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment > >, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment > >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h: In instantiation of ‘void seqan::_historyPush(Iter >, VSTree > >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag; TSpec = Preorder]’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:360:17: required from ‘bool seqan::_goDown(Iter >, VSTree > >&, VSTreeIteratorTraits) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag; TSpec = Preorder; TDfsOrder = Preorder_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 360 | _historyPush(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2296:14: required from ‘bool seqan::goDown(Iter > >&) [with TIndex = Index, Alloc > >, Owner > >, IndexSa > >; TSpec = Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2296 | if (_goDown(it, typename GetVSTreeIteratorTraits< Iter > > >::Type())) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:527:18: required from ‘bool seqan::_moveIteratorsDown(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 527 | return goDown(back(finder.textStack)) && goDown(back(finder.patternStack)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:432:27: required from ‘bool seqan::_pushState(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 432 | if (_moveIteratorsDown(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31: required from ‘void seqan::_find(Finder2, Index, Backtracking >&, TDelegate&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_; TDelegate = DbFinder, Alloc > >, Owner > >, Index, Alloc > >, Owner > >, IndexSa > >, Tag, Writer, Alloc > >, Owner > >, void>, Db, Alloc > >, Owner > >, Tag >, Tag >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1271 | if (_pushState(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:603:14: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 603 | _find(finderExt, dbFinder, StageInitial_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:619:20: warning: implicitly-declared ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ is deprecated [-Wdeprecated-copy] 619 | it._parentDesc = value(it); | ~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA >’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = seqan::SimpleType]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h: In instantiation of ‘void seqan::_historyPush(Iter >, VSTree > >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag; TSpec = Truncated]’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:360:17: required from ‘bool seqan::_goDown(Iter >, VSTree > >&, VSTreeIteratorTraits) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag; TSpec = Truncated; TDfsOrder = Preorder_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 360 | _historyPush(it); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2296:14: required from ‘bool seqan::goDown(Iter > >&) [with TIndex = Index, Alloc > >, Owner > >, IndexSa > >; TSpec = Truncated]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 2296 | if (_goDown(it, typename GetVSTreeIteratorTraits< Iter > > >::Type())) { /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:527:52: required from ‘bool seqan::_moveIteratorsDown(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 527 | return goDown(back(finder.textStack)) && goDown(back(finder.patternStack)); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:432:27: required from ‘bool seqan::_pushState(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 432 | if (_moveIteratorsDown(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31: required from ‘void seqan::_find(Finder2, Index, Backtracking >&, TDelegate&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_; TDelegate = DbFinder, Alloc > >, Owner > >, Index, Alloc > >, Owner > >, IndexSa > >, Tag, Writer, Alloc > >, Owner > >, void>, Db, Alloc > >, Owner > >, Tag >, Tag >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 1271 | if (_pushState(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:603:14: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 603 | _find(finderExt, dbFinder, StageInitial_()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:619:20: warning: implicitly-declared ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ is deprecated [-Wdeprecated-copy] 619 | it._parentDesc = value(it); | ~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA >’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = seqan::SimpleType]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h: In instantiation of ‘void seqan::_historyPush(Iter >, VSTree > >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag; TSpec = Preorder]’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:360:17: required from ‘bool seqan::_goDown(Iter >, VSTree > >&, VSTreeIteratorTraits) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag; TSpec = Preorder; TDfsOrder = Preorder_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 360 | _historyPush(it); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2296:14: required from ‘bool seqan::goDown(Iter > >&) [with TIndex = Index, Alloc > >, Owner > >, IndexSa > >; TSpec = Preorder]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 2296 | if (_goDown(it, typename GetVSTreeIteratorTraits< Iter > > >::Type())) { /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:527:18: required from ‘bool seqan::_moveIteratorsDown(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 527 | return goDown(back(finder.textStack)) && goDown(back(finder.patternStack)); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:432:27: required from ‘bool seqan::_pushState(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 432 | if (_moveIteratorsDown(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31: required from ‘void seqan::_find(Finder2, Index, Backtracking >&, TDelegate&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_; TDelegate = DbFinder, Alloc > >, Owner > >, Index, Alloc > >, Owner > >, IndexSa > >, Tag, Writer, Alloc > >, Owner > >, void>, Db, Alloc > >, Owner > >, Tag >, Tag >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 1271 | if (_pushState(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:603:14: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 603 | _find(finderExt, dbFinder, StageInitial_()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:520:39: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 520 | return runSearcher(options, TDbDna(), TDbDnaSaSmall(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:619:20: warning: implicitly-declared ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ is deprecated [-Wdeprecated-copy] 619 | it._parentDesc = value(it); | ~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA >’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = seqan::SimpleType]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h: In instantiation of ‘void seqan::_historyPush(Iter >, VSTree > >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag; TSpec = Truncated]’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:360:17: required from ‘bool seqan::_goDown(Iter >, VSTree > >&, VSTreeIteratorTraits) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag; TSpec = Truncated; TDfsOrder = Preorder_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 360 | _historyPush(it); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2296:14: required from ‘bool seqan::goDown(Iter > >&) [with TIndex = Index, Alloc > >, Owner > >, IndexSa > >; TSpec = Truncated]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 2296 | if (_goDown(it, typename GetVSTreeIteratorTraits< Iter > > >::Type())) { /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:527:52: required from ‘bool seqan::_moveIteratorsDown(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 527 | return goDown(back(finder.textStack)) && goDown(back(finder.patternStack)); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:432:27: required from ‘bool seqan::_pushState(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 432 | if (_moveIteratorsDown(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31: required from ‘void seqan::_find(Finder2, Index, Backtracking >&, TDelegate&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_; TDelegate = DbFinder, Alloc > >, Owner > >, Index, Alloc > >, Owner > >, IndexSa > >, Tag, Writer, Alloc > >, Owner > >, void>, Db, Alloc > >, Owner > >, Tag >, Tag >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 1271 | if (_pushState(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:603:14: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 603 | _find(finderExt, dbFinder, StageInitial_()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:520:39: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 520 | return runSearcher(options, TDbDna(), TDbDnaSaSmall(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:619:20: warning: implicitly-declared ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ is deprecated [-Wdeprecated-copy] 619 | it._parentDesc = value(it); | ~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA >’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = seqan::SimpleType]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h: In instantiation of ‘void seqan::_historyPush(Iter >, VSTree > >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag; TSpec = Preorder]’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:360:17: required from ‘bool seqan::_goDown(Iter >, VSTree > >&, VSTreeIteratorTraits) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag; TSpec = Preorder; TDfsOrder = Preorder_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 360 | _historyPush(it); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2296:14: required from ‘bool seqan::goDown(Iter > >&) [with TIndex = Index > >, Owner > >, IndexSa > >; TSpec = Preorder]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 2296 | if (_goDown(it, typename GetVSTreeIteratorTraits< Iter > > >::Type())) { /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:527:18: required from ‘bool seqan::_moveIteratorsDown(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 527 | return goDown(back(finder.textStack)) && goDown(back(finder.patternStack)); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:432:27: required from ‘bool seqan::_pushState(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 432 | if (_moveIteratorsDown(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31: required from ‘void seqan::_find(Finder2, Index, Backtracking >&, TDelegate&, const TStage&) [with TText = StringSet > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_; TDelegate = DbFinder > >, Owner > >, Index > >, Owner > >, IndexSa > >, Tag, Writer > >, Owner > >, void>, Db > >, Owner > >, Tag >, Tag >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 1271 | if (_pushState(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:603:14: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 603 | _find(finderExt, dbFinder, StageInitial_()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:537:39: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 537 | return runSearcher(options, TDbGeo(), TDbGeoSaHuge(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:619:20: warning: implicitly-declared ‘constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)’ is deprecated [-Wdeprecated-copy] 619 | it._parentDesc = value(it); | ~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h: In instantiation of ‘void seqan::_historyPush(Iter >, VSTree > >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag; TSpec = Truncated]’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:360:17: required from ‘bool seqan::_goDown(Iter >, VSTree > >&, VSTreeIteratorTraits) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag; TSpec = Truncated; TDfsOrder = Preorder_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 360 | _historyPush(it); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2296:14: required from ‘bool seqan::goDown(Iter > >&) [with TIndex = Index > >, Owner > >, IndexSa > >; TSpec = Truncated]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 2296 | if (_goDown(it, typename GetVSTreeIteratorTraits< Iter > > >::Type())) { /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:527:52: required from ‘bool seqan::_moveIteratorsDown(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 527 | return goDown(back(finder.textStack)) && goDown(back(finder.patternStack)); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:432:27: required from ‘bool seqan::_pushState(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 432 | if (_moveIteratorsDown(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31: required from ‘void seqan::_find(Finder2, Index, Backtracking >&, TDelegate&, const TStage&) [with TText = StringSet > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_; TDelegate = DbFinder > >, Owner > >, Index > >, Owner > >, IndexSa > >, Tag, Writer > >, Owner > >, void>, Db > >, Owner > >, Tag >, Tag >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 1271 | if (_pushState(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:603:14: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 603 | _find(finderExt, dbFinder, StageInitial_()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:537:39: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 537 | return runSearcher(options, TDbGeo(), TDbGeoSaHuge(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:619:20: warning: implicitly-declared ‘constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)’ is deprecated [-Wdeprecated-copy] 619 | it._parentDesc = value(it); | ~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h: In instantiation of ‘void seqan::_historyPush(Iter >, VSTree > >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag; TSpec = Preorder]’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:360:17: required from ‘bool seqan::_goDown(Iter >, VSTree > >&, VSTreeIteratorTraits) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag; TSpec = Preorder; TDfsOrder = Preorder_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 360 | _historyPush(it); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2296:14: required from ‘bool seqan::goDown(Iter > >&) [with TIndex = Index > >, Owner > >, IndexSa > >; TSpec = Preorder]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 2296 | if (_goDown(it, typename GetVSTreeIteratorTraits< Iter > > >::Type())) { /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:527:18: required from ‘bool seqan::_moveIteratorsDown(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 527 | return goDown(back(finder.textStack)) && goDown(back(finder.patternStack)); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:432:27: required from ‘bool seqan::_pushState(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 432 | if (_moveIteratorsDown(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31: required from ‘void seqan::_find(Finder2, Index, Backtracking >&, TDelegate&, const TStage&) [with TText = StringSet > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_; TDelegate = DbFinder > >, Owner > >, Index > >, Owner > >, IndexSa > >, Tag, Writer > >, Owner > >, void>, Db > >, Owner > >, Tag >, Tag >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 1271 | if (_pushState(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:603:14: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 603 | _find(finderExt, dbFinder, StageInitial_()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:544:39: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 544 | return runSearcher(options, TDbGeo(), TDbGeoSaSmall(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:619:20: warning: implicitly-declared ‘constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)’ is deprecated [-Wdeprecated-copy] 619 | it._parentDesc = value(it); | ~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h: In instantiation of ‘void seqan::_historyPush(Iter >, VSTree > >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag; TSpec = Truncated]’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:360:17: required from ‘bool seqan::_goDown(Iter >, VSTree > >&, VSTreeIteratorTraits) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag; TSpec = Truncated; TDfsOrder = Preorder_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 360 | _historyPush(it); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2296:14: required from ‘bool seqan::goDown(Iter > >&) [with TIndex = Index > >, Owner > >, IndexSa > >; TSpec = Truncated]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 2296 | if (_goDown(it, typename GetVSTreeIteratorTraits< Iter > > >::Type())) { /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:527:52: required from ‘bool seqan::_moveIteratorsDown(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 527 | return goDown(back(finder.textStack)) && goDown(back(finder.patternStack)); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:432:27: required from ‘bool seqan::_pushState(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 432 | if (_moveIteratorsDown(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31: required from ‘void seqan::_find(Finder2, Index, Backtracking >&, TDelegate&, const TStage&) [with TText = StringSet > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_; TDelegate = DbFinder > >, Owner > >, Index > >, Owner > >, IndexSa > >, Tag, Writer > >, Owner > >, void>, Db > >, Owner > >, Tag >, Tag >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 1271 | if (_pushState(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:603:14: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 603 | _find(finderExt, dbFinder, StageInitial_()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:544:39: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 544 | return runSearcher(options, TDbGeo(), TDbGeoSaSmall(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:619:20: warning: implicitly-declared ‘constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)’ is deprecated [-Wdeprecated-copy] 619 | it._parentDesc = value(it); | ~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:92: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String, Alloc > >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc > >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:139:40: required from ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc > >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc > >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 139 | : data_container(_toPointer(container_)), /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: required from ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment, Alloc > >, InfixSegment>; typename Iterator >::Type = Iter, Alloc > >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 541 | return TIterator(me, begin(me, Standard())); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment, Alloc > >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc > >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1634:63: required from ‘unsigned int seqan::_computeEditDistanceBanded(const TSeq1&, const TSeq2&, unsigned int) [with TSeq1 = Segment, Alloc > >, InfixSegment>; TSeq2 = Segment, Alloc > >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 1634 | typename Iterator::Type seq1Iter = begin(seq1, Rooted()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/verifier.h:136:52: required from ‘bool _verify(Verifier&, typename seqan::Size >::Type, typename seqan::Size >::Type, TDelegate&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >; typename seqan::Size >::Type = unsigned int; typename seqan::Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 136 | TErrors errors = _computeEditDistanceBanded(text1, text2, maxErrors); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/verifier.h:78:23: required from ‘bool Verifier::operator()(typename seqan::Size >::Type, typename seqan::Size >::Type, TDelegate&) [with TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >; TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = seqan::Tag; typename seqan::Size >::Type = unsigned int; typename seqan::Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 78 | return _verify(*this, dbId, queryId, delegate); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:802:30: required from ‘void execute(DbFinder, TDelegate, seqan::Tag >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Nothing; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 802 | dbFinder.verifier(dbId, queryId, dbFinder.delegate); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Nothing; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:506:31: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 506 | return runSearcher(options, TDbDna(), Nothing(), Online(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc > >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc > >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc > >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc > >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String > >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment > >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:139:40: required from ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment > >, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment > >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 139 | : data_container(_toPointer(container_)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: required from ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment > >, InfixSegment>; typename Iterator >::Type = Iter > >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 541 | return TIterator(me, begin(me, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment > >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter > >, InfixSegment>, AdaptorIterator > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1634:63: required from ‘unsigned int seqan::_computeEditDistanceBanded(const TSeq1&, const TSeq2&, unsigned int) [with TSeq1 = Segment > >, InfixSegment>; TSeq2 = Segment > >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1634 | typename Iterator::Type seq1Iter = begin(seq1, Rooted()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/verifier.h:136:52: required from ‘bool _verify(Verifier&, typename seqan::Size >::Type, typename seqan::Size >::Type, TDelegate&) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >; typename seqan::Size >::Type = unsigned int; typename seqan::Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 136 | TErrors errors = _computeEditDistanceBanded(text1, text2, maxErrors); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/verifier.h:78:23: required from ‘bool Verifier::operator()(typename seqan::Size >::Type, typename seqan::Size >::Type, TDelegate&) [with TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >; TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; typename seqan::Size >::Type = unsigned int; typename seqan::Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 78 | return _verify(*this, dbId, queryId, delegate); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:802:30: required from ‘void execute(DbFinder, TDelegate, seqan::Tag >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Nothing; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 802 | dbFinder.verifier(dbId, queryId, dbFinder.delegate); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Nothing; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:530:31: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 530 | return runSearcher(options, TDbGeo(), Nothing(), Online(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment > >, seqan::InfixSegment>::Segment(const seqan::Segment > >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment > >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String > >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:56: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Alloc > >; TSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 110 | suffixArray << creator; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc > >; TSetSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc > >, Owner > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:802:19: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 802 | *_cur = *src; | ~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Alloc > >; TSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 110 | suffixArray << creator; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc > >; TSetSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc > >, Owner > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:520:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 520 | return runSearcher(options, TDbDna(), TDbDnaSaSmall(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:802:19: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 802 | *_cur = *src; | ~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, String > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String > >; TSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 110 | suffixArray << creator; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String > >; TSetSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >, Owner > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:537:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 537 | return runSearcher(options, TDbGeo(), TDbGeoSaHuge(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:802:19: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 802 | *_cur = *src; | ~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, String > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String > >; TSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 110 | suffixArray << creator; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String > >; TSetSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >, Owner > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:544:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 544 | return runSearcher(options, TDbGeo(), TDbGeoSaSmall(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:802:19: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 802 | *_cur = *src; | ~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:98: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h: In instantiation of ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Alloc > >; TSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 108 | creator_t creator(unsigner, stringSetLimits(stringSet)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc > >; TSetSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc > >, Owner > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:347:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 347 | o1.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:357:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 357 | o0.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:361:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | o3.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:365:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 365 | o5.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:369:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 369 | o6.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:395:125: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 395 | /* 6 */ cp___(o6,0, *textIn); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:398:126: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 398 | /* 5 */ cp___(o5,0,cp___(o6,1, *textIn)); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:401:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 401 | /* 4 */ o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:405:127: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 405 | /* 3 */ cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:408:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 408 | /* 2 */ o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:412:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 412 | /* 1 */ o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:424:128: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 424 | /* 0 */ cp___(o0,0,cp___(o1,1,cp___(o2,2,cp___(o3,3, *textIn)))); ++textIn; o0.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:426:129: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 426 | /* 6 */ cp___(o0,1,cp___(o1,2,cp___(o2,3,cp___(o3,4, cp___(o6,0, *textIn))))); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:428:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 428 | /* 5 */ cp___(o0,2,cp___(o1,3,cp___(o2,4,cp___(o3,5, cp___(o5,0,cp___(o6,1, *textIn)))))); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:430:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 430 | /* 4 */ o0.i2[0] = o1.i2[1] = o2.i2[2] = o3.i2[2] = o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:435:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 435 | /* 3 */ cp___(o0,4,cp___(o1,5, cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:437:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 437 | /* 2 */ o0.i2[1] = o1.i2[2] = o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:441:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 441 | /* 1 */ o0.i2[2] = o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:454:128: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 454 | /* 0 */ cp___(o0,0,cp___(o1,1,cp___(o2,2,cp___(o3,3, *textIn)))); ++textIn; o0.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:456:129: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 456 | /* 6 */ cp___(o0,1,cp___(o1,2,cp___(o2,3,cp___(o3,4, cp___(o6,0, *textIn))))); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:458:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 458 | /* 5 */ cp___(o0,2,cp___(o1,3,cp___(o2,4,cp___(o3,5, cp___(o5,0,cp___(o6,1, *textIn)))))); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:460:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 460 | /* 4 */ o0.i2[0] = o1.i2[1] = o2.i2[2] = o3.i2[2] = o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:465:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 465 | /* 3 */ cp___(o0,4,cp___(o1,5, cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:467:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 467 | /* 2 */ o0.i2[1] = o1.i2[2] = o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:471:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 471 | /* 1 */ o0.i2[2] = o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h: In instantiation of ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Alloc > >; TSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 108 | creator_t creator(unsigner, stringSetLimits(stringSet)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc > >; TSetSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc > >, Owner > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:520:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 520 | return runSearcher(options, TDbDna(), TDbDnaSaSmall(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:347:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 347 | o1.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:357:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 357 | o0.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:361:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | o3.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:365:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 365 | o5.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:369:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 369 | o6.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:395:125: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 395 | /* 6 */ cp___(o6,0, *textIn); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:398:126: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 398 | /* 5 */ cp___(o5,0,cp___(o6,1, *textIn)); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:401:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 401 | /* 4 */ o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:405:127: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 405 | /* 3 */ cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:408:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 408 | /* 2 */ o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:412:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 412 | /* 1 */ o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:424:128: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 424 | /* 0 */ cp___(o0,0,cp___(o1,1,cp___(o2,2,cp___(o3,3, *textIn)))); ++textIn; o0.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:426:129: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 426 | /* 6 */ cp___(o0,1,cp___(o1,2,cp___(o2,3,cp___(o3,4, cp___(o6,0, *textIn))))); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:428:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 428 | /* 5 */ cp___(o0,2,cp___(o1,3,cp___(o2,4,cp___(o3,5, cp___(o5,0,cp___(o6,1, *textIn)))))); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:430:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 430 | /* 4 */ o0.i2[0] = o1.i2[1] = o2.i2[2] = o3.i2[2] = o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:435:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 435 | /* 3 */ cp___(o0,4,cp___(o1,5, cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:437:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 437 | /* 2 */ o0.i2[1] = o1.i2[2] = o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:441:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 441 | /* 1 */ o0.i2[2] = o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:454:128: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 454 | /* 0 */ cp___(o0,0,cp___(o1,1,cp___(o2,2,cp___(o3,3, *textIn)))); ++textIn; o0.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:456:129: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 456 | /* 6 */ cp___(o0,1,cp___(o1,2,cp___(o2,3,cp___(o3,4, cp___(o6,0, *textIn))))); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:458:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 458 | /* 5 */ cp___(o0,2,cp___(o1,3,cp___(o2,4,cp___(o3,5, cp___(o5,0,cp___(o6,1, *textIn)))))); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:460:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 460 | /* 4 */ o0.i2[0] = o1.i2[1] = o2.i2[2] = o3.i2[2] = o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:465:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 465 | /* 3 */ cp___(o0,4,cp___(o1,5, cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:467:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 467 | /* 2 */ o0.i2[1] = o1.i2[2] = o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:471:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 471 | /* 1 */ o0.i2[2] = o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h: In instantiation of ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String > >; TSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 108 | creator_t creator(unsigner, stringSetLimits(stringSet)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String > >; TSetSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >, Owner > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:537:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 537 | return runSearcher(options, TDbGeo(), TDbGeoSaHuge(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:347:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 347 | o1.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:357:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 357 | o0.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:361:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | o3.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:365:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 365 | o5.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:369:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 369 | o6.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:395:125: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 395 | /* 6 */ cp___(o6,0, *textIn); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:398:126: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 398 | /* 5 */ cp___(o5,0,cp___(o6,1, *textIn)); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:401:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 401 | /* 4 */ o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:405:127: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 405 | /* 3 */ cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:408:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 408 | /* 2 */ o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:412:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 412 | /* 1 */ o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:424:128: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 424 | /* 0 */ cp___(o0,0,cp___(o1,1,cp___(o2,2,cp___(o3,3, *textIn)))); ++textIn; o0.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:426:129: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 426 | /* 6 */ cp___(o0,1,cp___(o1,2,cp___(o2,3,cp___(o3,4, cp___(o6,0, *textIn))))); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:428:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 428 | /* 5 */ cp___(o0,2,cp___(o1,3,cp___(o2,4,cp___(o3,5, cp___(o5,0,cp___(o6,1, *textIn)))))); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:430:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 430 | /* 4 */ o0.i2[0] = o1.i2[1] = o2.i2[2] = o3.i2[2] = o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:435:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 435 | /* 3 */ cp___(o0,4,cp___(o1,5, cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:437:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 437 | /* 2 */ o0.i2[1] = o1.i2[2] = o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:441:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 441 | /* 1 */ o0.i2[2] = o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:454:128: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 454 | /* 0 */ cp___(o0,0,cp___(o1,1,cp___(o2,2,cp___(o3,3, *textIn)))); ++textIn; o0.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:456:129: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 456 | /* 6 */ cp___(o0,1,cp___(o1,2,cp___(o2,3,cp___(o3,4, cp___(o6,0, *textIn))))); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:458:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 458 | /* 5 */ cp___(o0,2,cp___(o1,3,cp___(o2,4,cp___(o3,5, cp___(o5,0,cp___(o6,1, *textIn)))))); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:460:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 460 | /* 4 */ o0.i2[0] = o1.i2[1] = o2.i2[2] = o3.i2[2] = o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:465:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 465 | /* 3 */ cp___(o0,4,cp___(o1,5, cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:467:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 467 | /* 2 */ o0.i2[1] = o1.i2[2] = o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:471:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 471 | /* 1 */ o0.i2[2] = o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h: In instantiation of ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String > >; TSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 108 | creator_t creator(unsigner, stringSetLimits(stringSet)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String > >; TSetSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >, Owner > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:544:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 544 | return runSearcher(options, TDbGeo(), TDbGeoSaSmall(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:347:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 347 | o1.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:357:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 357 | o0.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:361:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | o3.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:365:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 365 | o5.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:369:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 369 | o6.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:395:125: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 395 | /* 6 */ cp___(o6,0, *textIn); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:398:126: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 398 | /* 5 */ cp___(o5,0,cp___(o6,1, *textIn)); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:401:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 401 | /* 4 */ o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:405:127: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 405 | /* 3 */ cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:408:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 408 | /* 2 */ o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:412:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 412 | /* 1 */ o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:424:128: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 424 | /* 0 */ cp___(o0,0,cp___(o1,1,cp___(o2,2,cp___(o3,3, *textIn)))); ++textIn; o0.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:426:129: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 426 | /* 6 */ cp___(o0,1,cp___(o1,2,cp___(o2,3,cp___(o3,4, cp___(o6,0, *textIn))))); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:428:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 428 | /* 5 */ cp___(o0,2,cp___(o1,3,cp___(o2,4,cp___(o3,5, cp___(o5,0,cp___(o6,1, *textIn)))))); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:430:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 430 | /* 4 */ o0.i2[0] = o1.i2[1] = o2.i2[2] = o3.i2[2] = o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:435:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 435 | /* 3 */ cp___(o0,4,cp___(o1,5, cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:437:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 437 | /* 2 */ o0.i2[1] = o1.i2[2] = o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:441:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 441 | /* 1 */ o0.i2[2] = o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:454:128: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 454 | /* 0 */ cp___(o0,0,cp___(o1,1,cp___(o2,2,cp___(o3,3, *textIn)))); ++textIn; o0.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:456:129: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 456 | /* 6 */ cp___(o0,1,cp___(o1,2,cp___(o2,3,cp___(o3,4, cp___(o6,0, *textIn))))); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:458:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 458 | /* 5 */ cp___(o0,2,cp___(o1,3,cp___(o2,4,cp___(o3,5, cp___(o5,0,cp___(o6,1, *textIn)))))); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:460:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 460 | /* 4 */ o0.i2[0] = o1.i2[1] = o2.i2[2] = o3.i2[2] = o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:465:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 465 | /* 3 */ cp___(o0,4,cp___(o1,5, cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:467:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 467 | /* 2 */ o0.i2[1] = o1.i2[2] = o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:471:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 471 | /* 1 */ o0.i2[2] = o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1444:21: required from ‘void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1444 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1465:31: required from ‘void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1465 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:849:31: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String, seqan::Alloc > >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 849 | arrayConstructMove(old_array, old_array + start, seq_array); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: required from ‘typename seqan::Size >::Type seqan::_clearSpace(String&, TSize, TPosition, TPosition, Tag) [with TValue = SimpleType; TSpec = Alloc >; TSize = long unsigned int; TPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1014 | return ClearSpaceStringBase_ >::_clearSpace_(me, size, pos_begin, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1367:67: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = StringSet, Alloc > >, Owner > >; TValue = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:461:16: required from ‘bool _parseText(DbParser&, TReader&) [with TDb = Db, seqan::Alloc > >, seqan::Owner > >, void>; TSpec = void; TReader = seqan::RecordReader, seqan::SinglePass >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 461 | appendValue(parser.db.text, parser._text); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:394:50: required from ‘bool parseLine(DbParser&, TReader&) [with TDb = Db, seqan::Alloc > >, seqan::Owner > >, void>; TSpec = void; TReader = seqan::RecordReader, seqan::SinglePass >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 394 | return _parseId(parser, reader) && _parseText(parser, reader); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:534:23: required from ‘bool load(Db&, const TFileName&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = void; TFileName = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 534 | if (!parseLine(parser, reader)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:249:14: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Nothing; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 249 | if (!load(db, options.databaseFile)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:506:31: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 506 | return runSearcher(options, TDbDna(), Nothing(), Online(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1589:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1589 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::setHost(PairIncrementer_&, const TLimits2&) [with TPair = Pair >; TLimits = String >; TLimits2 = String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:382:10: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 382 | setHost(p, limits); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Alloc > >; TSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 108 | creator_t creator(unsigner, stringSetLimits(stringSet)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc > >; TSetSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:1032:16: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1032 | me.pos = TPair(0, 0); | ~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::pop(Pipe&, TValue&) [with TInput = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >, Skew7>; TSpec = Counter; TValue = Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_separator7.h:62:7: required from ‘void seqan::_skew7SeparateSlices(TInput&, const TFunctor&, TOut1&, TOut2&, TOut4&) [with TInput = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >, Skew7>, Counter>; TFunctor = _skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > >; TOut1 = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut2 = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut4 = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 62 | pop(in, i); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:386:26: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 386 | _skew7SeparateSlices( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^ 387 | renamer, func_slice, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~ 388 | names_S1, names_S2, names_S4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Alloc > >; TSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 108 | creator_t creator(unsigner, stringSetLimits(stringSet)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc > >; TSetSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:619:14: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 619 | Ref_ = *me; | ~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:218:12: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Alloc > >; TSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 218 | struct Pipe< TInput, Multi > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc > >; TSetSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::setHost(PairIncrementer_&, const TLimits2&) [with TPair = Pair >; TLimits = String >; TLimits2 = String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:382:10: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 382 | setHost(p, limits); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Alloc > >; TSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 108 | creator_t creator(unsigner, stringSetLimits(stringSet)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc > >; TSetSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:520:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 520 | return runSearcher(options, TDbDna(), TDbDnaSaSmall(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:1032:16: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1032 | me.pos = TPair(0, 0); | ~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:218:12: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Alloc > >; TSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 218 | struct Pipe< TInput, Multi > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc > >; TSetSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:520:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 520 | return runSearcher(options, TDbDna(), TDbDnaSaSmall(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:218:12: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String > >; TSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 218 | struct Pipe< TInput, Multi > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String > >; TSetSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:537:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 537 | return runSearcher(options, TDbGeo(), TDbGeoSaHuge(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:218:12: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String > >; TSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 218 | struct Pipe< TInput, Multi > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String > >; TSetSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:544:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 544 | return runSearcher(options, TDbGeo(), TDbGeoSaSmall(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveBackwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1641:30: required from ‘void seqan::arrayMoveBackward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1641 | _arrayMoveBackwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1213:26: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = SimpleType*; TSource1 = SimpleType*; TSource2 = SimpleType*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1213 | arrayMoveBackward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1660:14: required from ‘void seqan::_arrayClearSpacePointer(TValue*, size_t, size_t, size_t, const True&) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1660 | arrayMove(array_begin + keep_from, array_begin + array_length, array_begin + move_to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1681:28: required from ‘void seqan::arrayClearSpace(TValue*, size_t, size_t, size_t) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1681 | _arrayClearSpacePointer(array_begin, array_length, keep_from, move_to, typename IsSimple::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:856:28: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String, seqan::Alloc > >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 856 | arrayClearSpace(seq_array + start, old_length - start, removed_size, size); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = StringSet, Alloc > >, Owner > >; TValue = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:461:16: required from ‘bool _parseText(DbParser&, TReader&) [with TDb = Db, seqan::Alloc > >, seqan::Owner > >, void>; TSpec = void; TReader = seqan::RecordReader, seqan::SinglePass >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 461 | appendValue(parser.db.text, parser._text); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:394:50: required from ‘bool parseLine(DbParser&, TReader&) [with TDb = Db, seqan::Alloc > >, seqan::Owner > >, void>; TSpec = void; TReader = seqan::RecordReader, seqan::SinglePass >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 394 | return _parseId(parser, reader) && _parseText(parser, reader); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:534:23: required from ‘bool load(Db&, const TFileName&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = void; TFileName = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 534 | if (!parseLine(parser, reader)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:249:14: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Nothing; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 249 | if (!load(db, options.databaseFile)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:506:31: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 506 | return runSearcher(options, TDbDna(), Nothing(), Online(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1621:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1621 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc >; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc >; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:131:16: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:735:42: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Db, Alloc > >, Owner > >, Tag >; TValue2 = Db, Alloc > >, Owner > >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 735 | me.data_value = _holderAllocateObject(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Db, Alloc > >, Owner > >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Db, Alloc > >, Owner > >, Tag >; typename Reference > >::Type = Db, Alloc > >, Owner > >, Tag >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:797:45: required from ‘void execute(DbFinder, TDelegate, seqan::Tag >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Nothing; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 797 | TDbQuerySSize dbQuerySize = length(value(dbFinder.query).text); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Nothing; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:506:31: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 506 | return runSearcher(options, TDbDna(), Nothing(), Online(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:65: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h: In instantiation of ‘seqan::Pipe >, TPair, TLimitsString> >& seqan::Pipe >, TPair, TLimitsString> >::operator++() [with TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPair = seqan::Pair >; TLimitsString = seqan::String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:317:20: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 317 | sorter << sampler; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:599:20: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 599 | tmp.i1 = localPos; | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, unsigned int>, unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:324:41: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 324 | TNames_Sliced names_sliced; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::pop(TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:925:24: required from ‘void seqan::Pool::pop(TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 925 | reader->pop(Ref_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1159:15: required from ‘void seqan::pop(Pool&, TValue&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1159 | me.pop(Ref_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_separator7.h:62:7: required from ‘void seqan::_skew7SeparateSlices(TInput&, const TFunctor&, TOut1&, TOut2&, TOut4&) [with TInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TFunctor = _skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > >; TOut1 = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut2 = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut4 = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 62 | pop(in, i); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:342:25: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 342 | _skew7SeparateSlices( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^ 343 | names_sliced, func_slice, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~ 344 | names_S1, names_S2, names_S4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:926:18: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 926 | Ref_ = *cur; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 5, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:414:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 414 | if (r >= 6) push(out6, o6); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 5, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 4, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:415:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 415 | if (r >= 5) push(out5, o5); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 4, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:432:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 432 | if (r >= 3) push(out3, o3); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:443:9: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 443 | push(out0, o0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:243:12: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 243 | struct Pipe< TInput, Skew7 > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >, seqan::Tag >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T = seqan::SimpleType; unsigned int SIZE = 6; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:404:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 404 | _copy(inValue[0], *in.in1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:385:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 385 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: ‘struct seqan::Pair >’ declared here 95 | struct Pair | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >, seqan::Tag >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T = seqan::SimpleType; unsigned int SIZE = 4; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:422:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 422 | _copy(inValue[5], *in.in3); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:385:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 385 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: ‘struct seqan::Pair >’ declared here 95 | struct Pair | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >, seqan::Tag >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T = seqan::SimpleType; unsigned int SIZE = 5; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:431:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 431 | _copy(inValue[6], *in.in4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:385:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 385 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: ‘struct seqan::Pair >’ declared here 95 | struct Pair | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h: In instantiation of ‘seqan::Pipe >, TPair, TLimitsString> >& seqan::Pipe >, TPair, TLimitsString> >::operator++() [with TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPair = seqan::Pair >; TLimitsString = seqan::String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:317:20: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 317 | sorter << sampler; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:520:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 520 | return runSearcher(options, TDbDna(), TDbDnaSaSmall(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:599:20: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 599 | tmp.i1 = localPos; | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 5, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:414:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 414 | if (r >= 6) push(out6, o6); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:520:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 520 | return runSearcher(options, TDbDna(), TDbDnaSaSmall(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 5, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 4, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:415:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 415 | if (r >= 5) push(out5, o5); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:520:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 520 | return runSearcher(options, TDbDna(), TDbDnaSaSmall(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 4, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:432:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 432 | if (r >= 3) push(out3, o3); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:520:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 520 | return runSearcher(options, TDbDna(), TDbDnaSaSmall(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:443:9: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 443 | push(out0, o0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:520:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 520 | return runSearcher(options, TDbDna(), TDbDnaSaSmall(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >, seqan::Tag >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T = seqan::SimpleType; unsigned int SIZE = 6; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:404:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 404 | _copy(inValue[0], *in.in1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:520:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 520 | return runSearcher(options, TDbDna(), TDbDnaSaSmall(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:385:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 385 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: ‘struct seqan::Pair >’ declared here 97 | struct Pair > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >, seqan::Tag >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T = seqan::SimpleType; unsigned int SIZE = 4; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:422:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 422 | _copy(inValue[5], *in.in3); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:520:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 520 | return runSearcher(options, TDbDna(), TDbDnaSaSmall(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:385:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 385 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: ‘struct seqan::Pair >’ declared here 97 | struct Pair > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >, seqan::Tag >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T = seqan::SimpleType; unsigned int SIZE = 5; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:431:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 431 | _copy(inValue[6], *in.in4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:520:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 520 | return runSearcher(options, TDbDna(), TDbDnaSaSmall(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:385:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 385 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: ‘struct seqan::Pair >’ declared here 97 | struct Pair > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h: In instantiation of ‘seqan::Pipe, TPair, TLimitsString> >& seqan::Pipe, TPair, TLimitsString> >::operator++() [with TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; unsigned int m = 7; TPack = seqan::Tag; TPair = seqan::Pair >; TLimitsString = seqan::String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >; TSource = Pipe > >, Source<> >, Caster >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >; TSource = Pipe > >, Source<> >, Caster >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >; TSource = Pipe > >, Source<> >, Caster >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:317:20: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 317 | sorter << sampler; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:537:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 537 | return runSearcher(options, TDbGeo(), TDbGeoSaHuge(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:497:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 497 | tmpRef->i1 = localPos; | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:414:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 414 | if (r >= 6) push(out6, o6); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:537:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 537 | return runSearcher(options, TDbGeo(), TDbGeoSaHuge(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:415:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 415 | if (r >= 5) push(out5, o5); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:537:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 537 | return runSearcher(options, TDbGeo(), TDbGeoSaHuge(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:432:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 432 | if (r >= 3) push(out3, o3); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:537:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 537 | return runSearcher(options, TDbGeo(), TDbGeoSaHuge(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:443:9: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 443 | push(out0, o0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:537:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 537 | return runSearcher(options, TDbGeo(), TDbGeoSaHuge(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:404:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 404 | _copy(inValue[0], *in.in1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:537:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 537 | return runSearcher(options, TDbGeo(), TDbGeoSaHuge(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:376:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 376 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: ‘struct seqan::Pair >’ declared here 95 | struct Pair | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:422:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 422 | _copy(inValue[5], *in.in3); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:537:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 537 | return runSearcher(options, TDbGeo(), TDbGeoSaHuge(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:376:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 376 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: ‘struct seqan::Pair >’ declared here 95 | struct Pair | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:431:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 431 | _copy(inValue[6], *in.in4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:537:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 537 | return runSearcher(options, TDbGeo(), TDbGeoSaHuge(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:376:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 376 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: ‘struct seqan::Pair >’ declared here 95 | struct Pair | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h: In instantiation of ‘seqan::Pipe, TPair, TLimitsString> >& seqan::Pipe, TPair, TLimitsString> >::operator++() [with TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; unsigned int m = 7; TPack = seqan::Tag; TPair = seqan::Pair >; TLimitsString = seqan::String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >; TSource = Pipe > >, Source<> >, Caster >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >; TSource = Pipe > >, Source<> >, Caster >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >; TSource = Pipe > >, Source<> >, Caster >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:317:20: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 317 | sorter << sampler; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:544:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 544 | return runSearcher(options, TDbGeo(), TDbGeoSaSmall(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:497:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 497 | tmpRef->i1 = localPos; | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:414:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 414 | if (r >= 6) push(out6, o6); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:544:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 544 | return runSearcher(options, TDbGeo(), TDbGeoSaSmall(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:415:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 415 | if (r >= 5) push(out5, o5); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:544:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 544 | return runSearcher(options, TDbGeo(), TDbGeoSaSmall(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:432:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 432 | if (r >= 3) push(out3, o3); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:544:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 544 | return runSearcher(options, TDbGeo(), TDbGeoSaSmall(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:443:9: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 443 | push(out0, o0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:544:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 544 | return runSearcher(options, TDbGeo(), TDbGeoSaSmall(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:404:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 404 | _copy(inValue[0], *in.in1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:544:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 544 | return runSearcher(options, TDbGeo(), TDbGeoSaSmall(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:376:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 376 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: ‘struct seqan::Pair >’ declared here 97 | struct Pair > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:422:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 422 | _copy(inValue[5], *in.in3); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:544:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 544 | return runSearcher(options, TDbGeo(), TDbGeoSaSmall(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:376:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 376 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: ‘struct seqan::Pair >’ declared here 97 | struct Pair > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:431:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 431 | _copy(inValue[6], *in.in4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:544:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 544 | return runSearcher(options, TDbGeo(), TDbGeoSaSmall(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:376:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 376 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: ‘struct seqan::Pair >’ declared here 97 | struct Pair > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:64: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘const typename seqan::Value > >::Type& seqan::Pipe >::operator*() [with TInput = seqan::Pool >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NCompMulti >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>; typename seqan::Value > >::Type = seqan::Pair >, unsigned int, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:148:22: required from ‘const typename seqan::Value > >::Type seqan::Pipe >::operator*() const [with TInput = seqan::Pipe >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int> > >; TFunctor = seqan::_skew7GlobalSlicedMulti >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > >; typename seqan::Value > >::Type = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 148 | return F(*in); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:24: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 328 | names_sliced << slicedPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:134:20: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 134 | tmp.i1 = getValueI1(*in); | ~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NCompMulti >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int> > >; TFunctor = seqan::_skew7GlobalSlicedMulti >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 153 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | names_sliced << slicedPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:143:22: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >& seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 143 | last = *in; | ~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple, 7, seqan::BitPacked<> >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_separator7.h:64:9: required from ‘void seqan::_skew7SeparateSlices(TInput&, const TFunctor&, TOut1&, TOut2&, TOut4&) [with TInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TFunctor = _skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > >; TOut1 = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut2 = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut4 = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 64 | push(out4, i); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:342:25: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 342 | _skew7SeparateSlices( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^ 343 | names_sliced, func_slice, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~ 344 | names_S1, names_S2, names_S4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, unsigned int>, unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_separator7.h:64:9: required from ‘void seqan::_skew7SeparateSlices(TInput&, const TFunctor&, TOut1&, TOut2&, TOut4&) [with TInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TFunctor = _skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > >; TOut1 = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut2 = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut4 = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 64 | push(out4, i); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:342:25: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 342 | _skew7SeparateSlices( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^ 343 | names_sliced, func_slice, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~ 344 | names_S1, names_S2, names_S4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TSpec = MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:416:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 416 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TSpec = MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:416:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 416 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘const typename seqan::Value > >::Type& seqan::Pipe >::operator*() [with TInput = seqan::Pool >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NCompMulti >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>; typename seqan::Value > >::Type = seqan::Pair >, unsigned int, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:148:22: required from ‘const typename seqan::Value > >::Type seqan::Pipe >::operator*() const [with TInput = seqan::Pipe >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int> > >; TFunctor = seqan::_skew7GlobalSlicedMulti >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > >; typename seqan::Value > >::Type = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 148 | return F(*in); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:24: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | names_sliced << slicedPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:520:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 520 | return runSearcher(options, TDbDna(), TDbDnaSaSmall(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:134:20: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 134 | tmp.i1 = getValueI1(*in); | ~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NCompMulti >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int> > >; TFunctor = seqan::_skew7GlobalSlicedMulti >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 153 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 328 | names_sliced << slicedPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:520:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 520 | return runSearcher(options, TDbDna(), TDbDnaSaSmall(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:143:22: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >& seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 143 | last = *in; | ~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple, 7, seqan::BitPacked<> >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TSpec = MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:416:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 416 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:520:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 520 | return runSearcher(options, TDbDna(), TDbDnaSaSmall(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TSpec = MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:416:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 416 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:520:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 520 | return runSearcher(options, TDbDna(), TDbDnaSaSmall(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘const typename seqan::Value > >::Type& seqan::Pipe >::operator*() [with TInput = seqan::Pool >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NCompMulti >, seqan::Tuple >, seqan::Tag >, int>; typename seqan::Value > >::Type = seqan::Pair >, unsigned int, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:148:22: required from ‘const typename seqan::Value > >::Type seqan::Pipe >::operator*() const [with TInput = seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >; TFunctor = seqan::_skew7GlobalSlicedMulti >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > >; typename seqan::Value > >::Type = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 148 | return F(*in); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:24: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | names_sliced << slicedPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:537:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 537 | return runSearcher(options, TDbGeo(), TDbGeoSaHuge(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:134:20: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 134 | tmp.i1 = getValueI1(*in); | ~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NCompMulti >, seqan::Tuple >, seqan::Tag >, int>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >; TFunctor = seqan::_skew7GlobalSlicedMulti >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 153 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | names_sliced << slicedPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:537:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 537 | return runSearcher(options, TDbGeo(), TDbGeoSaHuge(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:143:22: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple >, seqan::Tag >& seqan::Pair >, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 143 | last = *in; | ~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:416:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 416 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:537:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 537 | return runSearcher(options, TDbGeo(), TDbGeoSaHuge(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:416:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 416 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:537:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 537 | return runSearcher(options, TDbGeo(), TDbGeoSaHuge(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘const typename seqan::Value > >::Type& seqan::Pipe >::operator*() [with TInput = seqan::Pool >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NCompMulti >, seqan::Tuple >, seqan::Tag >, int>; typename seqan::Value > >::Type = seqan::Pair >, unsigned int, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:148:22: required from ‘const typename seqan::Value > >::Type seqan::Pipe >::operator*() const [with TInput = seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >; TFunctor = seqan::_skew7GlobalSlicedMulti >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > >; typename seqan::Value > >::Type = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 148 | return F(*in); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:24: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | names_sliced << slicedPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:544:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 544 | return runSearcher(options, TDbGeo(), TDbGeoSaSmall(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:134:20: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 134 | tmp.i1 = getValueI1(*in); | ~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NCompMulti >, seqan::Tuple >, seqan::Tag >, int>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >; TFunctor = seqan::_skew7GlobalSlicedMulti >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 153 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 328 | names_sliced << slicedPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:544:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 544 | return runSearcher(options, TDbGeo(), TDbGeoSaSmall(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:143:22: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple >, seqan::Tag >& seqan::Pair >, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 143 | last = *in; | ~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:416:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 416 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:544:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 544 | return runSearcher(options, TDbGeo(), TDbGeoSaSmall(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:416:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 416 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:544:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 544 | return runSearcher(options, TDbGeo(), TDbGeoSaSmall(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:317:20: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >& seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple, 7, seqan::BitPacked<> >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘bool seqan::control(Pipe >&, const ControlBeginRead&) [with TInput = Pool >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >; TCompare = _skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int>; ControlBeginRead = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:651:23: required from ‘bool seqan::control(Pipe&, const TCommand&) [with TInput = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >; TSpec = Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > >; TCommand = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 651 | return control(me.in, command); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >; TSpec = Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:164:21: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >& seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 164 | me.last = *me.in; | ~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple, 7, seqan::BitPacked<> >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:165:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 165 | me.tmp.i1 = me.last.i1; | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Pair >; TConfig = MapperConfigSize >, unsigned int>, unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:401:106: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 401 | /* 4 */ o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, unsigned int>, unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:341:41: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 341 | TNames_Sliced names_sliced(map_sliced); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NComp >, seqan::Tag >, int>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:345:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 345 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:143:22: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 143 | last = *in; | ~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, unsigned int>, unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:352:45: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 352 | TNames_Linear_Unique names_linear(map_linear); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 2, int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:161:29: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 161 | if (r >= 6) push(out6, o6); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:162:29: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 162 | if (r >= 5) push(out5, o5); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:179:29: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 179 | if (r >= 3) push(out3, o3); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 3, int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:190:17: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 190 | push(out0, o0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:173:12: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 173 | struct Pipe< TInput, Skew3 > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:317:20: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:520:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 520 | return runSearcher(options, TDbDna(), TDbDnaSaSmall(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >& seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple, 7, seqan::BitPacked<> >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘bool seqan::control(Pipe >&, const ControlBeginRead&) [with TInput = Pool >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >; TCompare = _skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int>; ControlBeginRead = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:651:23: required from ‘bool seqan::control(Pipe&, const TCommand&) [with TInput = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >; TSpec = Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > >; TCommand = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 651 | return control(me.in, command); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >; TSpec = Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:520:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 520 | return runSearcher(options, TDbDna(), TDbDnaSaSmall(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:164:21: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >& seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 164 | me.last = *me.in; | ~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple, 7, seqan::BitPacked<> >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:165:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 165 | me.tmp.i1 = me.last.i1; | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Pair >, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >; TSource = Pipe > >, Source<> >, Caster >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >; TSource = Pipe > >, Source<> >, Caster >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >; TSource = Pipe > >, Source<> >, Caster >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:317:20: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:537:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 537 | return runSearcher(options, TDbGeo(), TDbGeoSaHuge(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple >, seqan::Tag >& seqan::Pair >, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘bool seqan::control(Pipe >&, const ControlBeginRead&) [with TInput = Pool >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >; TCompare = _skew7NCompMulti >, Tuple >, Tag >, int>; ControlBeginRead = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:651:23: required from ‘bool seqan::control(Pipe&, const TCommand&) [with TInput = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >; TSpec = Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > >; TCommand = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 651 | return control(me.in, command); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >; TSpec = Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:537:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 537 | return runSearcher(options, TDbGeo(), TDbGeoSaHuge(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:164:21: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple >, seqan::Tag >& seqan::Pair >, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 164 | me.last = *me.in; | ~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:165:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 165 | me.tmp.i1 = me.last.i1; | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Pair >, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >; TSource = Pipe > >, Source<> >, Caster >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >; TSource = Pipe > >, Source<> >, Caster >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >; TSource = Pipe > >, Source<> >, Caster >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:317:20: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:544:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 544 | return runSearcher(options, TDbGeo(), TDbGeoSaSmall(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple >, seqan::Tag >& seqan::Pair >, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘bool seqan::control(Pipe >&, const ControlBeginRead&) [with TInput = Pool >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >; TCompare = _skew7NCompMulti >, Tuple >, Tag >, int>; ControlBeginRead = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:651:23: required from ‘bool seqan::control(Pipe&, const TCommand&) [with TInput = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >; TSpec = Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > >; TCommand = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 651 | return control(me.in, command); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >; TSpec = Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:544:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 544 | return runSearcher(options, TDbGeo(), TDbGeoSaSmall(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:164:21: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple >, seqan::Tag >& seqan::Pair >, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 164 | me.last = *me.in; | ~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:165:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 165 | me.tmp.i1 = me.last.i1; | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::setHost(PairDecrementer_&, const TLimits2&) [with TPair = Pair >; TLimits = String >; unsigned int m = 7; TLimits2 = String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:537:11: required from ‘void seqan::Pipe >, TPair, TLimitsString> >::prepare() [with TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPair = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 537 | setHost(localPos, limits); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:613:19: required from ‘bool seqan::control(Pipe, TPair, TLimitsString> >&, const ControlBeginRead&) [with TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; unsigned int m = 7; TPack = BitPacked<>; TPair = Pair >; TLimitsString = String >; ControlBeginRead = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 613 | me.prepare(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, Pair >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:1119:16: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1119 | me.pos = TPair(0, 0); | ~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h: In instantiation of ‘void seqan::Pipe >, TPair, TLimitsString> >::fill() [with TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPair = seqan::Pair >; TLimitsString = seqan::String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:544:13: required from ‘void seqan::Pipe >, TPair, TLimitsString> >::prepare() [with TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPair = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 544 | fill(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:613:19: required from ‘bool seqan::control(Pipe, TPair, TLimitsString> >&, const ControlBeginRead&) [with TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; unsigned int m = 7; TPack = BitPacked<>; TPair = Pair >; TLimitsString = String >; ControlBeginRead = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 613 | me.prepare(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, Pair >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:557:32: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 557 | tmp.i1 = localPos; | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘bool seqan::control(Pipe >&, const ControlBeginRead&) [with TInput = Pool >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >; TCompare = _skew7NComp >, Tag >, int>; ControlBeginRead = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pool >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >; TSpec = Namer<_skew7NComp >, Tag >, int> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:345:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 345 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:164:21: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 164 | me.last = *me.in; | ~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h: In instantiation of ‘TResult seqan::_skew7NComp::operator()(const TValue&, const TValue&) const [with TValue = seqan::Pair >, seqan::Tag >; TResult = int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:141:30: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NComp >, seqan::Tag >, int>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 141 | if (!eof(in) && C(last, *in) != 0) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:345:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 345 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:74:43: warning: taking address of packed member of ‘seqan::Tuple >’ may result in an unaligned pointer value [-Waddress-of-packed-member] 74 | const TStoredValue *sa = a.i2.i; | ~~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: taking address of packed member of ‘seqan::Tuple >’ may result in an unaligned pointer value [-Waddress-of-packed-member] 75 | const TStoredValue *sb = b.i2.i; | ~~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = MapperSpec, Tuple >, Tag >, unsigned int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:163:29: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 163 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = MapperSpec, Tuple >, Tag >, unsigned int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:163:29: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 163 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::setHost(PairDecrementer_&, const TLimits2&) [with TPair = Pair >; TLimits = String >; unsigned int m = 7; TLimits2 = String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:537:11: required from ‘void seqan::Pipe >, TPair, TLimitsString> >::prepare() [with TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPair = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 537 | setHost(localPos, limits); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:613:19: required from ‘bool seqan::control(Pipe, TPair, TLimitsString> >&, const ControlBeginRead&) [with TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; unsigned int m = 7; TPack = BitPacked<>; TPair = Pair >; TLimitsString = String >; ControlBeginRead = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 613 | me.prepare(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, Pair >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:520:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 520 | return runSearcher(options, TDbDna(), TDbDnaSaSmall(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:1119:16: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1119 | me.pos = TPair(0, 0); | ~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h: In instantiation of ‘void seqan::Pipe >, TPair, TLimitsString> >::fill() [with TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPair = seqan::Pair >; TLimitsString = seqan::String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:544:13: required from ‘void seqan::Pipe >, TPair, TLimitsString> >::prepare() [with TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPair = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 544 | fill(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:613:19: required from ‘bool seqan::control(Pipe, TPair, TLimitsString> >&, const ControlBeginRead&) [with TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; unsigned int m = 7; TPack = BitPacked<>; TPair = Pair >; TLimitsString = String >; ControlBeginRead = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 613 | me.prepare(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, Pair >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:520:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 520 | return runSearcher(options, TDbDna(), TDbDnaSaSmall(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:557:32: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 557 | tmp.i1 = localPos; | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h: In instantiation of ‘void seqan::Pipe, TPair, TLimitsString> >::fill() [with TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; unsigned int m = 7; TPack = seqan::Tag; TPair = seqan::Pair >; TLimitsString = seqan::String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:426:13: required from ‘void seqan::Pipe, TPair, TLimitsString> >::prepare() [with TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; unsigned int m = 7; TPack = seqan::Tag; TPair = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 426 | fill(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:613:19: required from ‘bool seqan::control(Pipe, TPair, TLimitsString> >&, const ControlBeginRead&) [with TInput = Pipe > >, Source<> >, Caster >; unsigned int m = 7; TPack = Tag; TPair = Pair >; TLimitsString = String >; ControlBeginRead = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 613 | me.prepare(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, Pair >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >; TSource = Pipe > >, Source<> >, Caster >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >; TSource = Pipe > >, Source<> >, Caster >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:537:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 537 | return runSearcher(options, TDbGeo(), TDbGeoSaHuge(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:438:24: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 438 | tmpRef->i1 = localPos; | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h: In instantiation of ‘void seqan::Pipe, TPair, TLimitsString> >::fill() [with TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; unsigned int m = 7; TPack = seqan::Tag; TPair = seqan::Pair >; TLimitsString = seqan::String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:426:13: required from ‘void seqan::Pipe, TPair, TLimitsString> >::prepare() [with TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; unsigned int m = 7; TPack = seqan::Tag; TPair = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 426 | fill(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:613:19: required from ‘bool seqan::control(Pipe, TPair, TLimitsString> >&, const ControlBeginRead&) [with TInput = Pipe > >, Source<> >, Caster >; unsigned int m = 7; TPack = Tag; TPair = Pair >; TLimitsString = String >; ControlBeginRead = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 613 | me.prepare(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, Pair >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >; TSource = Pipe > >, Source<> >, Caster >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >; TSource = Pipe > >, Source<> >, Caster >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:544:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 544 | return runSearcher(options, TDbGeo(), TDbGeoSaSmall(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:438:24: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 438 | tmpRef->i1 = localPos; | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Pair >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, unsigned int, File > > >; TSource = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >, Sampler<7, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, unsigned int, File > > >; TSource = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >, Sampler<7, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, unsigned int, File > > >; TSource = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >, Sampler<7, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:335:20: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Pair >; TConfig = MapperConfigSize<_skew7NMapLinear >, unsigned int>, unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:148:104: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 148 | /* 4 */ o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn).i2; ++nameIn; o4.i1 = p--; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, unsigned int>, unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:247:41: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 247 | TNames_Sliced names_sliced(map_sliced); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 218 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:376:34: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >; TCompare = seqan::_skew3NComp >, seqan::Tag >, int>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:251:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 251 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 218 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:376:34: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:143:22: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 143 | last = *in; | ~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, unsigned int>, unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:259:45: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 259 | TNames_Linear_Unique names_linear(map_linear); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 218 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:376:34: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple, Tag >; TSpec = SorterSpec, Tuple, Tag >, int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender3.h:123:17: required from ‘bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 123 | push(out0, o0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:269:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 269 | _skew3Extend(textIn, names_linear, sortedS0, sortedS12); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 218 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:376:34: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:59: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h: In instantiation of ‘const typename seqan::StoredTupleValue_::Type& seqan::Tuple >::operator[](TPos) const [with TPos = int; TValue = unsigned int; unsigned int SIZE = 6; typename seqan::StoredTupleValue_::Type = unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:124:27: required from ‘bool seqan::CompareSkewDCStream::operator()(const seqan::SkewDCStream&, const seqan::SkewDCStream&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 124 | if (a.i.i3[i] < b.i.i3[i]) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:307:23: required from ‘void seqan::Pipe, seqan::Merger7>::insertStream(unsigned int) [with TInput0 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, unsigned int, seqan::File > > > >; TInput3 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, unsigned int, seqan::File > > > >; TInput5 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, unsigned int, seqan::File > > > >; TInput6 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, unsigned int, seqan::File > > > >; TInput124 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 307 | if (!streamGreater(inValue[stream],inValue[rank[right]])) break; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:319:4: required from ‘seqan::Pipe, seqan::Merger7>& seqan::Pipe, seqan::Merger7>::operator++() [with TInput0 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, unsigned int, seqan::File > > > >; TInput3 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, unsigned int, seqan::File > > > >; TInput5 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, unsigned int, seqan::File > > > >; TInput6 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, unsigned int, seqan::File > > > >; TInput124 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 319 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:440:13: required from ‘seqan::Pipe& seqan::Pipe::operator++() [with TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 440 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_counter.h:105:13: required from ‘seqan::Pipe& seqan::Pipe::operator++() [with TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >, seqan::Skew7>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 105 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:620:9: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: returning reference to temporary [-Wreturn-local-addr] 171 | return i[k]; | ~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:446:6: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 446 | ++in.in5; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:446:6: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 446 | ++in.in5; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:520:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 520 | return runSearcher(options, TDbDna(), TDbDnaSaSmall(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:446:6: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 446 | ++in.in5; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:537:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 537 | return runSearcher(options, TDbGeo(), TDbGeoSaHuge(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:446:6: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 446 | ++in.in5; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:454:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, Online) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; Online = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 454 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:544:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 544 | return runSearcher(options, TDbGeo(), TDbGeoSaSmall(), Parallel(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, unsigned int>, unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, unsigned int>, unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘bool seqan::control(Pipe >&, const ControlBeginRead&) [with TInput = Pool >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >; TCompare = _skew3NComp >, Tag >, int>; ControlBeginRead = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pool >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >; TSpec = Namer<_skew3NComp >, Tag >, int> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:251:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 251 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:164:21: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 164 | me.last = *me.in; | ~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h: In instantiation of ‘TResult seqan::_skew3NComp::operator()(const TValue&, const TValue&) const [with TValue = seqan::Pair >, seqan::Tag >; TResult = int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:141:30: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >; TCompare = seqan::_skew3NComp >, seqan::Tag >, int>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 141 | if (!eof(in) && C(last, *in) != 0) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:251:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 251 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:74:43: warning: taking address of packed member of ‘seqan::Tuple >’ may result in an unaligned pointer value [-Waddress-of-packed-member] 74 | const TStoredValue *sa = a.i2.i; | ~~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: taking address of packed member of ‘seqan::Tuple >’ may result in an unaligned pointer value [-Waddress-of-packed-member] 75 | const TStoredValue *sb = b.i2.i; | ~~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple, Tag >; TSpec = MapperSpec, Tuple, Tag >, unsigned int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender3.h:101:17: required from ‘bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 101 | push(out12, o2); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:269:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 269 | _skew3Extend(textIn, names_linear, sortedS0, sortedS12); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple, Tag >; TSpec = MapperSpec, Tuple, Tag >, unsigned int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender3.h:101:17: required from ‘bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 101 | push(out12, o2); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:269:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 269 | _skew3Extend(textIn, names_linear, sortedS0, sortedS12); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Pair >; TConfig = MapperConfigSize<_skew7NMapSliced >, unsigned int>, unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >; TFunctor = seqan::filterI2 >, unsigned int>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 153 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_lss.h:415:29: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Pair >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, unsigned int, File > > >; TSource = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >, Sampler<3> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, unsigned int, File > > >; TSource = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >, Sampler<3> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, unsigned int, File > > >; TSource = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >, Sampler<3> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:241:20: [ skipping 11 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Pair >; TConfig = MapperConfigSize<_skew3NMapLinear >, unsigned int>, unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender3.h:86:38: required from ‘bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 86 | o2.i2[0] = (*nameIn).i2; ++nameIn; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:269:29: [ skipping 11 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, unsigned int>, unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, unsigned int>, unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended, Tuple >, Tag >, unsigned int>, unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer, seqan::Tuple >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:301:6: required from ‘void seqan::Pipe, seqan::Merger7>::insertStream(unsigned int) [with TInput0 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, unsigned int, seqan::File > > > >; TInput3 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, unsigned int, seqan::File > > > >; TInput5 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, unsigned int, seqan::File > > > >; TInput6 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, unsigned int, seqan::File > > > >; TInput124 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 301 | ++in.in5; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:319:4: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Pair >; TConfig = MapperConfigSize<_skew3NMapSliced >, unsigned int>, unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: [ skipping 13 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple, Tag >; TConfig = MapperConfigSize<_skew3NMapExtended, Tuple, Tag >, unsigned int>, unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer, seqan::Tuple, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger3.h:111:17: required from ‘seqan::Pipe, seqan::Merger3>& seqan::Pipe, seqan::Merger3>::operator++() [with TInput0 = seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned int, seqan::File > > > >; TInput12 = seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 111 | ++in.in2; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:329:13: [ skipping 15 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h: In instantiation of ‘const typename seqan::StoredTupleValue_::Type& seqan::Tuple >::operator[](TPos) const [with TPos = unsigned int; TValue = unsigned int; unsigned int SIZE = 6; typename seqan::StoredTupleValue_::Type = unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:191:25: required from ‘TResult seqan::_skew7ExtendComp::operator()(const TValue&, const TValue&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; unsigned int EXT_LENGTH = 3; TResult = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 191 | if (a.i3[i] == b.i3[i]) continue; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:50:21: required from ‘bool seqan::MergeStreamComparer::operator()(const seqan::PageBucket&, const seqan::PageBucket&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; Compare = seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 3, int>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 50 | return C(static_cast(*(a.cur)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 51 | static_cast(*(b.cur))) > 0; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:356:13: required from ‘void seqan::_adjustHeapTowardLeaves(PriorityType&, TValue, TSize, TSize) [with TValue = PageBucketExtended, Tuple >, Tag > >; TLess = MergeStreamComparer, Tuple >, Tag >, _skew7ExtendComp, Tuple >, Tag >, 3, int> >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 356 | if ( less ( element, me.heap[i] ) ) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:335:26: required from ‘void seqan::pop(PriorityType&) [with TValue = PageBucketExtended, Tuple >, Tag > >; TLess = MergeStreamComparer, Tuple >, Tag >, _skew7ExtendComp, Tuple >, Tag >, 3, int> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 335 | _adjustHeapTowardLeaves(me, element, 0, 2 ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18: required from ‘void seqan::Handler, seqan::Tag >::pop() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TPoolSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 311 | ::seqan::pop(pqueue); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24: [ skipping 15 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: returning reference to temporary [-Wreturn-local-addr] 171 | return i[k]; | ~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h: In instantiation of ‘const typename seqan::StoredTupleValue_::Type& seqan::Tuple >::operator[](TPos) const [with TPos = unsigned int; TValue = unsigned int; unsigned int SIZE = 4; typename seqan::StoredTupleValue_::Type = unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:191:25: required from ‘TResult seqan::_skew7ExtendComp::operator()(const TValue&, const TValue&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; unsigned int EXT_LENGTH = 1; TResult = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 191 | if (a.i3[i] == b.i3[i]) continue; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:50:21: required from ‘bool seqan::MergeStreamComparer::operator()(const seqan::PageBucket&, const seqan::PageBucket&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; Compare = seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 1, int>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 50 | return C(static_cast(*(a.cur)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 51 | static_cast(*(b.cur))) > 0; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:356:13: required from ‘void seqan::_adjustHeapTowardLeaves(PriorityType&, TValue, TSize, TSize) [with TValue = PageBucketExtended, Tuple >, Tag > >; TLess = MergeStreamComparer, Tuple >, Tag >, _skew7ExtendComp, Tuple >, Tag >, 1, int> >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 356 | if ( less ( element, me.heap[i] ) ) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:335:26: required from ‘void seqan::pop(PriorityType&) [with TValue = PageBucketExtended, Tuple >, Tag > >; TLess = MergeStreamComparer, Tuple >, Tag >, _skew7ExtendComp, Tuple >, Tag >, 1, int> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 335 | _adjustHeapTowardLeaves(me, element, 0, 2 ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18: required from ‘void seqan::Handler, seqan::Tag >::pop() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TPoolSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 311 | ::seqan::pop(pqueue); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24: [ skipping 15 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: returning reference to temporary [-Wreturn-local-addr] 171 | return i[k]; | ~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h: In instantiation of ‘const typename seqan::StoredTupleValue_::Type& seqan::Tuple >::operator[](TPos) const [with TPos = unsigned int; TValue = unsigned int; unsigned int SIZE = 5; typename seqan::StoredTupleValue_::Type = unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:191:25: required from ‘TResult seqan::_skew7ExtendComp::operator()(const TValue&, const TValue&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; unsigned int EXT_LENGTH = 2; TResult = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 191 | if (a.i3[i] == b.i3[i]) continue; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:50:21: required from ‘bool seqan::MergeStreamComparer::operator()(const seqan::PageBucket&, const seqan::PageBucket&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; Compare = seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 2, int>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 50 | return C(static_cast(*(a.cur)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 51 | static_cast(*(b.cur))) > 0; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:356:13: required from ‘void seqan::_adjustHeapTowardLeaves(PriorityType&, TValue, TSize, TSize) [with TValue = PageBucketExtended, Tuple >, Tag > >; TLess = MergeStreamComparer, Tuple >, Tag >, _skew7ExtendComp, Tuple >, Tag >, 2, int> >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 356 | if ( less ( element, me.heap[i] ) ) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:335:26: required from ‘void seqan::pop(PriorityType&) [with TValue = PageBucketExtended, Tuple >, Tag > >; TLess = MergeStreamComparer, Tuple >, Tag >, _skew7ExtendComp, Tuple >, Tag >, 2, int> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 335 | _adjustHeapTowardLeaves(me, element, 0, 2 ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18: required from ‘void seqan::Handler, seqan::Tag >::pop() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TPoolSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 311 | ::seqan::pop(pqueue); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24: [ skipping 15 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = seqan::Tag; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:328:12: required from ‘int runSearcher(Options&, const TText&, const TIndex&, TSpec, const seqan::Nothing&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 328 | execute(searcher); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/search.cpp:513:39: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 513 | return runSearcher(options, TDbDna(), TDbDnaSaHuge(), Parallel(), Nothing()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: returning reference to temporary [-Wreturn-local-addr] 171 | return i[k]; | ~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h: In function ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, unsigned int>, unsigned int, File > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:142:117: warning: this statement may fall through [-Wimplicit-fallthrough=] 142 | /* 6 */ cp___(o6,0, *textIn); ++textIn; o6.i1 = p--; | ~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:144:9: note: here 144 | case 5: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:145:118: warning: this statement may fall through [-Wimplicit-fallthrough=] 145 | /* 5 */ cp___(o5,0,cp___(o6,1, *textIn)); ++textIn; o5.i1 = p--; | ~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:147:9: note: here 147 | case 4: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:149:103: warning: this statement may fall through [-Wimplicit-fallthrough=] 149 | cp___(o4,0,cp___(o5,1,cp___(o6,2, *textIn))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:151:9: note: here 151 | case 3: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:152:119: warning: this statement may fall through [-Wimplicit-fallthrough=] 152 | /* 3 */ cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))); ++textIn; o3.i1 = p--; | ~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:154:9: note: here 154 | case 2: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:156:105: warning: this statement may fall through [-Wimplicit-fallthrough=] 156 | cp___(o2,0,cp___(o3,1,cp___(o4,2,cp___(o5,3,cp___(o6,4, *textIn))))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:158:9: note: here 158 | case 1: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h: In function ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:395:130: warning: this statement may fall through [-Wimplicit-fallthrough=] 395 | /* 6 */ cp___(o6,0, *textIn); ++textIn; o6.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:397:25: note: here 397 | case 5: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:398:131: warning: this statement may fall through [-Wimplicit-fallthrough=] 398 | /* 5 */ cp___(o5,0,cp___(o6,1, *textIn)); ++textIn; o5.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:400:25: note: here 400 | case 4: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:402:162: warning: this statement may fall through [-Wimplicit-fallthrough=] 402 | cp___(o4,0,cp___(o5,1,cp___(o6,2, *textIn))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:404:25: note: here 404 | case 3: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:405:132: warning: this statement may fall through [-Wimplicit-fallthrough=] 405 | /* 3 */ cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))); ++textIn; o3.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:407:25: note: here 407 | case 2: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:409:138: warning: this statement may fall through [-Wimplicit-fallthrough=] 409 | cp___(o2,0,cp___(o3,1,cp___(o4,2,cp___(o5,3,cp___(o6,4, *textIn))))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:411:25: note: here 411 | case 1: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h: In function ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:395:130: warning: this statement may fall through [-Wimplicit-fallthrough=] 395 | /* 6 */ cp___(o6,0, *textIn); ++textIn; o6.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:397:25: note: here 397 | case 5: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:398:131: warning: this statement may fall through [-Wimplicit-fallthrough=] 398 | /* 5 */ cp___(o5,0,cp___(o6,1, *textIn)); ++textIn; o5.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:400:25: note: here 400 | case 4: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:402:162: warning: this statement may fall through [-Wimplicit-fallthrough=] 402 | cp___(o4,0,cp___(o5,1,cp___(o6,2, *textIn))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:404:25: note: here 404 | case 3: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:405:132: warning: this statement may fall through [-Wimplicit-fallthrough=] 405 | /* 3 */ cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))); ++textIn; o3.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:407:25: note: here 407 | case 2: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:409:138: warning: this statement may fall through [-Wimplicit-fallthrough=] 409 | cp___(o2,0,cp___(o3,1,cp___(o4,2,cp___(o5,3,cp___(o6,4, *textIn))))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:411:25: note: here 411 | case 1: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h: In function ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:395:130: warning: this statement may fall through [-Wimplicit-fallthrough=] 395 | /* 6 */ cp___(o6,0, *textIn); ++textIn; o6.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:397:25: note: here 397 | case 5: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:398:131: warning: this statement may fall through [-Wimplicit-fallthrough=] 398 | /* 5 */ cp___(o5,0,cp___(o6,1, *textIn)); ++textIn; o5.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:400:25: note: here 400 | case 4: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:402:162: warning: this statement may fall through [-Wimplicit-fallthrough=] 402 | cp___(o4,0,cp___(o5,1,cp___(o6,2, *textIn))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:404:25: note: here 404 | case 3: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:405:132: warning: this statement may fall through [-Wimplicit-fallthrough=] 405 | /* 3 */ cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))); ++textIn; o3.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:407:25: note: here 407 | case 2: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:409:138: warning: this statement may fall through [-Wimplicit-fallthrough=] 409 | cp___(o2,0,cp___(o3,1,cp___(o4,2,cp___(o5,3,cp___(o6,4, *textIn))))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:411:25: note: here 411 | case 1: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h: In function ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:395:130: warning: this statement may fall through [-Wimplicit-fallthrough=] 395 | /* 6 */ cp___(o6,0, *textIn); ++textIn; o6.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:397:25: note: here 397 | case 5: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:398:131: warning: this statement may fall through [-Wimplicit-fallthrough=] 398 | /* 5 */ cp___(o5,0,cp___(o6,1, *textIn)); ++textIn; o5.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:400:25: note: here 400 | case 4: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:402:162: warning: this statement may fall through [-Wimplicit-fallthrough=] 402 | cp___(o4,0,cp___(o5,1,cp___(o6,2, *textIn))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:404:25: note: here 404 | case 3: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:405:132: warning: this statement may fall through [-Wimplicit-fallthrough=] 405 | /* 3 */ cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))); ++textIn; o3.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:407:25: note: here 407 | case 2: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:409:138: warning: this statement may fall through [-Wimplicit-fallthrough=] 409 | cp___(o2,0,cp___(o3,1,cp___(o4,2,cp___(o5,3,cp___(o6,4, *textIn))))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:411:25: note: here 411 | case 1: | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, seqan::Iter, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, unsigned long, seqan::AllocateStorage_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, seqan::Iter, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, void, unsigned long>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type)seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, unsigned long>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long)seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘seqan::eraseBack, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&)void’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, seqan::Iter, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, unsigned long, seqan::AllocateStorage_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, seqan::Iter, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, void, unsigned long>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type)seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, unsigned long>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long)seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551424’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘seqan::eraseBack, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&)void’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, seqan::Iter, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, unsigned long, seqan::AllocateStorage_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, seqan::Iter, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, void, unsigned long>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type)seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, unsigned long>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long)seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘seqan::eraseBack, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&)void’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, seqan::Iter, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, unsigned long, seqan::AllocateStorage_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, seqan::Iter, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, void, unsigned long>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type)seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, unsigned long>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long)seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551424’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘seqan::eraseBack, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&)void’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, seqan::Iter > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, unsigned long, seqan::AllocateStorage_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, seqan::Iter > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, void, unsigned long>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long)seqan::Value > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long)seqan::Value > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type)seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, unsigned long>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long)seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘seqan::eraseBack > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&)void’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, seqan::Iter > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, unsigned long, seqan::AllocateStorage_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, seqan::Iter > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, void, unsigned long>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long)seqan::Value > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long)seqan::Value > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type)seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, unsigned long>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long)seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551424’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘seqan::eraseBack > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&)void’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, seqan::Iter > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, unsigned long, seqan::AllocateStorage_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, seqan::Iter > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, void, unsigned long>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long)seqan::Value > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long)seqan::Value > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type)seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, unsigned long>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long)seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘seqan::eraseBack > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&)void’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, seqan::Iter > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, unsigned long, seqan::AllocateStorage_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, seqan::Iter > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, void, unsigned long>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long)seqan::Value > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long)seqan::Value > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type)seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, unsigned long>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long)seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551424’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘seqan::eraseBack > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&)void’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int> > >(seqan::PriorityType >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, unsigned int>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:423:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, unsigned int>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int> > >(seqan::PriorityType >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, unsigned int>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:432:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, unsigned int>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int> > >(seqan::PriorityType >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, unsigned int>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:423:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, unsigned int>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int> > >(seqan::PriorityType >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, unsigned int>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:432:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, unsigned int>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int> > >(seqan::PriorityType >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:423:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int> > >(seqan::PriorityType >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:432:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int> > >(seqan::PriorityType >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:423:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int> > >(seqan::PriorityType >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:432:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended, seqan::Tuple >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended, seqan::Tuple >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, seqan::Tuple >, seqan::Tag > >, void, unsigned long>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 1u, int> > >(seqan::PriorityType, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 1u, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned int, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned int, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > > >, seqan::Merger7>::insertStream(unsigned int)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:279:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > > >, seqan::Merger7>::insertStream(unsigned int)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended, seqan::Tuple >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended, seqan::Tuple >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, seqan::Tuple >, seqan::Tag > >, void, unsigned long>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 2u, int> > >(seqan::PriorityType, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 2u, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned int, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned int, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > > >, seqan::Merger7>::insertStream(unsigned int)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:289:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > > >, seqan::Merger7>::insertStream(unsigned int)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate, seqan::Tuple, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended, seqan::Tuple, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended, seqan::Tuple, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, seqan::Tuple, seqan::Tag > >, void, unsigned long>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Tuple, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, seqan::Tuple, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Tuple, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, seqan::Tuple, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, seqan::Tuple, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, seqan::Tuple, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, seqan::Tuple, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Tuple, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, seqan::Tuple, seqan::Tag > >, seqan::Alloc > >(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, seqan::Size, seqan::Tuple, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size, seqan::Tuple, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, seqan::Tuple, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Tuple, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop, seqan::Tuple, seqan::Tag > >, seqan::MergeStreamComparer, seqan::Tuple, seqan::Tag >, seqan::_skew3ExtendComp, seqan::Tuple, seqan::Tag >, int> > >(seqan::PriorityType, seqan::Tuple, seqan::Tag > >, seqan::MergeStreamComparer, seqan::Tuple, seqan::Tag >, seqan::_skew3ExtendComp, seqan::Tuple, seqan::Tag >, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned int, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > > >, seqan::Merger3>::operator++() [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger3.h:127:17: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > > >, seqan::Merger3>::operator++() [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tag >, seqan::_skew7NComp >, seqan::Tag >, int> > >(seqan::PriorityType >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tag >, seqan::_skew7NComp >, seqan::Tag >, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘seqan::append >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >&)bool [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘seqan::append >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >&)bool [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tag >, seqan::_skew3NComp >, seqan::Tag >, int> > >(seqan::PriorityType >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tag >, seqan::_skew3NComp >, seqan::Tag >, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘seqan::append >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >&)bool [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘seqan::assign >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >&)bool [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple >, seqan::Tag >, seqan::_skew7NCompMulti >, seqan::Tuple >, seqan::Tag >, int> > >(seqan::PriorityType >, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple >, seqan::Tag >, seqan::_skew7NCompMulti >, seqan::Tuple >, seqan::Tag >, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13, inlined from ‘seqan::append >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘seqan::operator<< >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘seqan::Pipe > >, seqan::Source >, seqan::Caster >, seqan::Multi >, seqan::String > > >::process > >, seqan::Source >, seqan::Caster > >(seqan::Pipe > >, seqan::Source >, seqan::Caster >&)bool [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe > >, seqan::Source >, seqan::Caster >, seqan::Multi >, seqan::String > > >::process > >, seqan::Source >, seqan::Caster > >(seqan::Pipe > >, seqan::Source >, seqan::Caster >&)bool [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple >, seqan::Tag >, seqan::_skew7NCompMulti >, seqan::Tuple >, seqan::Tag >, int> > >(seqan::PriorityType >, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple >, seqan::Tag >, seqan::_skew7NCompMulti >, seqan::Tuple >, seqan::Tag >, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13, inlined from ‘seqan::append >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘seqan::operator<< >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘seqan::Pipe > >, seqan::Source >, seqan::Caster >, seqan::Multi >, seqan::String > > >::process > >, seqan::Source >, seqan::Caster > >(seqan::Pipe > >, seqan::Source >, seqan::Caster >&)bool [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe > >, seqan::Source >, seqan::Caster >, seqan::Multi >, seqan::String > > >::process > >, seqan::Source >, seqan::Caster > >(seqan::Pipe > >, seqan::Source >, seqan::Caster >&)bool [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7NCompMulti >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >(seqan::PriorityType >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7NCompMulti >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13, inlined from ‘seqan::append >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘seqan::operator<< >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘seqan::Pipe, seqan::Alloc > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> >, seqan::Multi >, seqan::String > > >::process, seqan::Alloc > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> > >(seqan::Pipe, seqan::Alloc > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> >&)bool [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe, seqan::Alloc > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> >, seqan::Multi >, seqan::String > > >::process, seqan::Alloc > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> > >(seqan::Pipe, seqan::Alloc > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> >&)bool [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7NCompMulti >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >(seqan::PriorityType >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7NCompMulti >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13, inlined from ‘seqan::append >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘seqan::operator<< >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘seqan::Pipe, seqan::Alloc > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> >, seqan::Multi >, seqan::String > > >::process, seqan::Alloc > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> > >(seqan::Pipe, seqan::Alloc > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> >&)bool [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe, seqan::Alloc > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> >, seqan::Multi >, seqan::String > > >::process, seqan::Alloc > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> > >(seqan::Pipe, seqan::Alloc > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> >&)bool [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ [ 79%] Linking CXX executable ../../../bin/search cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/searchjoin && /usr/bin/cmake -E cmake_link_script CMakeFiles/search.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/search.dir/search.cpp.o -o ../../../bin/search -lrt In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toHtml’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/tool_doc.h:284:34: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551568’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘_toHtml’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘eraseBack’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551424’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘eraseBack’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘eraseBack’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551424’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘eraseBack’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘eraseBack’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551424’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘eraseBack’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘eraseBack’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551424’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘eraseBack’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_16HammingDistance_EEENS4_I7Bottom_EENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_16HammingDistance_EEENS4_I7Bottom_EENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I8SmallDb_EEEEEENS4_I6Query_EE6WriterI2DbISD_vESN_ISD_SL_ENS4_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:634:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I8SmallDb_EEEEEENS4_I6Query_EE6WriterI2DbISD_vESN_ISD_SL_ENS4_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1275:30, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1241:1, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I8SmallDb_EEEEEENS4_I6Query_EE6WriterI2DbISD_vESN_ISD_SL_ENS4_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:634:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I8SmallDb_EEEEEENS4_I6Query_EE6WriterI2DbISD_vESN_ISD_SL_ENS4_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1241:1, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1275:30, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1241:1, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I8SmallDb_EEEEEENS4_I6Query_EE6WriterI2DbISD_vESN_ISD_SL_ENS4_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:634:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I8SmallDb_EEEEEENS4_I6Query_EE6WriterI2DbISD_vESN_ISD_SL_ENS4_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1241:1, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I8SmallDb_EEEEEENS4_I6Query_EE6WriterI2DbISD_vESN_ISD_SL_ENS4_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:634:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I8SmallDb_EEEEEENS4_I6Query_EE6WriterI2DbISD_vESN_ISD_SL_ENS4_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_16HammingDistance_EEENS7_I7Bottom_EENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_16HammingDistance_EEENS7_I7Bottom_EENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_16HammingDistance_EEENS7_INS_23BacktrackingSemiGlobal_EEENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS_7NothingEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_16HammingDistance_EEENS7_INS_23BacktrackingSemiGlobal_EEENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS_7NothingEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_16HammingDistance_EEENS7_I7Bottom_EENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_16HammingDistance_EEENS7_I7Bottom_EENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_16HammingDistance_EEENS7_INS_23BacktrackingSemiGlobal_EEENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS_7NothingEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_16HammingDistance_EEENS7_INS_23BacktrackingSemiGlobal_EEENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS_7NothingEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_16HammingDistance_EEENS4_I7Bottom_EENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_16HammingDistance_EEENS4_I7Bottom_EENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_16HammingDistance_EEENS4_INS_23BacktrackingSemiGlobal_EEENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS_7NothingEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_16HammingDistance_EEENS4_INS_23BacktrackingSemiGlobal_EEENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS_7NothingEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_16HammingDistance_EEENS4_INS_23BacktrackingSemiGlobal_EEENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS_7NothingEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_16HammingDistance_EEENS4_INS_23BacktrackingSemiGlobal_EEENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS_7NothingEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I8SmallDb_EEEEEENS4_I6Query_EE6WriterI2DbISD_vESN_ISD_SL_ENS4_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.1’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:642:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I8SmallDb_EEEEEENS4_I6Query_EE6WriterI2DbISD_vESN_ISD_SL_ENS4_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.1’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1, inlined from ‘_find.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_find.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1, inlined from ‘_find.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_find.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1, inlined from ‘_find.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_find.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1, inlined from ‘_find.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_find.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1, inlined from ‘_find.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_find.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1, inlined from ‘_find.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_find.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1, inlined from ‘_find.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_find.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1, inlined from ‘_find.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_find.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:423:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:432:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:423:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:432:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:423:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:432:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:423:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:432:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘operator<<’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘process.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘process.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘assign.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘operator<<’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘process.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:345:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘process.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_INS_23BacktrackingSemiGlobal_EEENS_11StageUpper_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS_7NothingEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_INS_23BacktrackingSemiGlobal_EEENS_11StageUpper_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS_7NothingEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_INS_23BacktrackingSemiGlobal_EEENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS_7NothingEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_INS_23BacktrackingSemiGlobal_EEENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS_7NothingEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I7Bottom_EENS_11StageUpper_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I7Bottom_EENS_11StageUpper_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I7Bottom_EENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I7Bottom_EENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘pop’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_INS_23BacktrackingSemiGlobal_EEENS_11StageUpper_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS_7NothingEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_INS_23BacktrackingSemiGlobal_EEENS_11StageUpper_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS_7NothingEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_INS_23BacktrackingSemiGlobal_EEENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS_7NothingEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_INS_23BacktrackingSemiGlobal_EEENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS_7NothingEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:279:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:289:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I7Bottom_EENS_11StageUpper_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I7Bottom_EENS_11StageUpper_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I7Bottom_EENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I7Bottom_EENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I7Bottom_EENS_11StageUpper_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I7Bottom_EENS_11StageUpper_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I7Bottom_EENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I7Bottom_EENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_16HammingDistance_EEENS7_I4Top_EENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_16HammingDistance_EEENS7_I4Top_EENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_16HammingDistance_EEENS7_I4Top_EENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_16HammingDistance_EEENS7_I4Top_EENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_16HammingDistance_EEENS4_I4Top_EENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_16HammingDistance_EEENS4_I4Top_EENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_16HammingDistance_EEENS4_I4Top_EENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_16HammingDistance_EEENS4_I4Top_EENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_INS_23BacktrackingSemiGlobal_EEENS_11StageUpper_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS_7NothingEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_INS_23BacktrackingSemiGlobal_EEENS_11StageUpper_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS_7NothingEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_INS_23BacktrackingSemiGlobal_EEENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS_7NothingEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_INS_23BacktrackingSemiGlobal_EEENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS_7NothingEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I7Bottom_EENS_11StageUpper_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I7Bottom_EENS_11StageUpper_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I7Bottom_EENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I7Bottom_EENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_INS_23BacktrackingSemiGlobal_EEENS_11StageUpper_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS_7NothingEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_INS_23BacktrackingSemiGlobal_EEENS_11StageUpper_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS_7NothingEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_INS_23BacktrackingSemiGlobal_EEENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS_7NothingEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_INS_23BacktrackingSemiGlobal_EEENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS_7NothingEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I4Top_EENS_11StageLower_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I4Top_EENS_11StageLower_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I4Top_EENS_11StageUpper_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I4Top_EENS_11StageUpper_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I4Top_EENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I4Top_EENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I4Top_EENS_11StageLower_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I4Top_EENS_11StageLower_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I4Top_EENS_11StageUpper_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I4Top_EENS_11StageUpper_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I4Top_EENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I4Top_EENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EENS7_I6Query_EE6WriterI2DbISG_vESW_ISG_SU_ENS7_I7Search_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I4Top_EENS_11StageLower_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I4Top_EENS_11StageLower_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I4Top_EENS_11StageUpper_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I4Top_EENS_11StageUpper_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I4Top_EENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I4Top_EENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I4Top_EENS_11StageLower_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I4Top_EENS_11StageLower_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I4Top_EENS_11StageUpper_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I4Top_EENS_11StageUpper_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I4Top_EENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I4Top_EENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EENS4_I6Query_EE6WriterI2DbISD_vEST_ISD_SR_ENS4_I7Search_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘operator<<’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘process.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘process.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘operator<<’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘process.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘process.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘operator<<’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘process.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘process.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger3.h:127:17: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘operator++.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I7HugeDb_EEEEEENS7_I6Query_EE6WriterI2DbISG_vESQ_ISG_SO_ENS7_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:634:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I7HugeDb_EEEEEENS7_I6Query_EE6WriterI2DbISG_vESQ_ISG_SO_ENS7_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1275:30, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1241:1, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I7HugeDb_EEEEEENS7_I6Query_EE6WriterI2DbISG_vESQ_ISG_SO_ENS7_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:634:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I7HugeDb_EEEEEENS7_I6Query_EE6WriterI2DbISG_vESQ_ISG_SO_ENS7_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1241:1, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1275:30, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1241:1, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I7HugeDb_EEEEEENS7_I6Query_EE6WriterI2DbISG_vESQ_ISG_SO_ENS7_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:634:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I7HugeDb_EEEEEENS7_I6Query_EE6WriterI2DbISG_vESQ_ISG_SO_ENS7_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1241:1, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I7HugeDb_EEEEEENS7_I6Query_EE6WriterI2DbISG_vESQ_ISG_SO_ENS7_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:634:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I7HugeDb_EEEEEENS7_I6Query_EE6WriterI2DbISG_vESQ_ISG_SO_ENS7_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I7HugeDb_EEEEEENS7_I6Query_EE6WriterI2DbISG_vESQ_ISG_SO_ENS7_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.1’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:642:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I7HugeDb_EEEEEENS7_I6Query_EE6WriterI2DbISG_vESQ_ISG_SO_ENS7_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.1’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I7HugeDb_EEEEEENS4_I6Query_EE6WriterI2DbISD_vESN_ISD_SL_ENS4_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:634:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I7HugeDb_EEEEEENS4_I6Query_EE6WriterI2DbISD_vESN_ISD_SL_ENS4_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1275:30, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1241:1, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I7HugeDb_EEEEEENS4_I6Query_EE6WriterI2DbISD_vESN_ISD_SL_ENS4_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:634:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I7HugeDb_EEEEEENS4_I6Query_EE6WriterI2DbISD_vESN_ISD_SL_ENS4_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1241:1, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1275:30, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1241:1, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I7HugeDb_EEEEEENS4_I6Query_EE6WriterI2DbISD_vESN_ISD_SL_ENS4_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:634:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I7HugeDb_EEEEEENS4_I6Query_EE6WriterI2DbISD_vESN_ISD_SL_ENS4_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1241:1, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I7HugeDb_EEEEEENS4_I6Query_EE6WriterI2DbISD_vESN_ISD_SL_ENS4_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:634:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I7HugeDb_EEEEEENS4_I6Query_EE6WriterI2DbISD_vESN_ISD_SL_ENS4_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I7HugeDb_EEEEEENS4_I6Query_EE6WriterI2DbISD_vESN_ISD_SL_ENS4_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.1’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:642:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I7HugeDb_EEEEEENS4_I6Query_EE6WriterI2DbISD_vESN_ISD_SL_ENS4_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.1’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I8SmallDb_EEEEEENS7_I6Query_EE6WriterI2DbISG_vESQ_ISG_SO_ENS7_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:634:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I8SmallDb_EEEEEENS7_I6Query_EE6WriterI2DbISG_vESQ_ISG_SO_ENS7_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1275:30, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1241:1, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I8SmallDb_EEEEEENS7_I6Query_EE6WriterI2DbISG_vESQ_ISG_SO_ENS7_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:634:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I8SmallDb_EEEEEENS7_I6Query_EE6WriterI2DbISG_vESQ_ISG_SO_ENS7_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1241:1, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1275:30, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1241:1, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I8SmallDb_EEEEEENS7_I6Query_EE6WriterI2DbISG_vESQ_ISG_SO_ENS7_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:634:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I8SmallDb_EEEEEENS7_I6Query_EE6WriterI2DbISG_vESQ_ISG_SO_ENS7_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1241:1, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I8SmallDb_EEEEEENS7_I6Query_EE6WriterI2DbISG_vESQ_ISG_SO_ENS7_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:634:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I8SmallDb_EEEEEENS7_I6Query_EE6WriterI2DbISG_vESQ_ISG_SO_ENS7_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I8SmallDb_EEEEEENS7_I6Query_EE6WriterI2DbISG_vESQ_ISG_SO_ENS7_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.1’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:642:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I8SmallDb_EEEEEENS7_I6Query_EE6WriterI2DbISG_vESQ_ISG_SO_ENS7_I7Search_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.1’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 79%] Built target search make -f extras/apps/searchjoin/CMakeFiles/join.dir/build.make extras/apps/searchjoin/CMakeFiles/join.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/searchjoin /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/searchjoin/CMakeFiles/join.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/searchjoin/CMakeFiles/join.dir/build.make extras/apps/searchjoin/CMakeFiles/join.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 80%] Building CXX object extras/apps/searchjoin/CMakeFiles/join.dir/join.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/searchjoin && /usr/bin/g++ -DSEQAN_DATE=\"\" -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_REVISION=\"\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/searchjoin/CMakeFiles/join.dir/join.cpp.o -MF CMakeFiles/join.dir/join.cpp.o.d -o CMakeFiles/join.dir/join.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:53: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:51: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:62, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:43, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:56: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:45:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:54:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:63:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 63 | struct filterI3 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:401:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 401 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:507:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 507 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:78: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:42:48: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public ::std::binary_function < PageBucket, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:57:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:257:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 257 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:372:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 372 | struct insertBucket : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:44: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_set.h:373:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:404:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 404 | public::std::binary_function // functor for operator> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:744:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 744 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:760:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 760 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:80: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:854:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 854 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:902:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 902 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:970:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 970 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1039:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1039 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1073:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1073 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1121:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1121 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2093:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2093 | struct _qgramComp : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2112:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2112 | public ::std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:46:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 46 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:85:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 85 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:96: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:98:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 98 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:112:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 112 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:127:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:144:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:154:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:99: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:110:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 110 | public ::std::binary_function < SkewDCStream, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:143:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 143 | public ::std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:100: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:99:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 99 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:118:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:132:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 132 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:154:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:175:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 175 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:185:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 185 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:103: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:57:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:97:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 97 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:141:29: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:109: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:59:42: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:164:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, KasaiOriginal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:312:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 312 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:313:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 313 | LCP[isa - 1] = h; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:379:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 379 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:380:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 380 | LCP[i] = h | mark; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const StringSet&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:483:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 483 | for(TSize hMax = _min(getValueI2((TPair)dec), n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:484:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 484 | LCP[i] = h | mark; | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:113: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h:144:50: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:585:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 585 | public ::std::binary_function< Pair, Pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:128: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In function ‘void seqan::_storeWotdChildren(Index > >&, TSize, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:504:27: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 504 | } else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:506:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 506 | for (TDirSize d = index.sentinelBound - index.sentinelOcc; d != index.sentinelBound; ++d) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:136: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h:149:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 149 | struct RepeatLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:157: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h: In function ‘typename seqan::Iterator >::Type seqan::_upperBoundLcpe(TText&, TSA&, SearchTreeIterator, TQuery&, TDiff_, TDiff_)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1498:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1498 | for(; i && ordEqual(*t, convert(*q)); --i, ++t, ++q) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1501 | if (q == qEnd || t == tEnd || !ordGreater(*t, convert(*q))) { | ^~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h: In instantiation of ‘void build(DbIndex, TDbIndexSpec>&, Db&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndexSpec = seqan::IndexSa >; TDbIndexSpec = void; TDbSpec = void; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:347:10: required from ‘void index(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 347 | build(dbFinder.dbIndex, dbFinder.db, seqan::Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:262:10: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 262 | index(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:316:37: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: 316 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:780:19: warning: implicitly-declared ‘seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >&)’ is deprecated [-Wdeprecated-copy] 780 | dbIndex.index = TIndex(db.text); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index_extras.h:54, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:44: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: because ‘seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = seqan::Tag]’ 86 | Index(Index const & other) : | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h: In instantiation of ‘void build(DbIndex, TDbIndexSpec>&, Db&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndexSpec = seqan::IndexSa >; TDbIndexSpec = void; TDbSpec = void; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:336:10: required from ‘void index(DbFinder&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 336 | build(dbFinder.dbIndex, dbFinder.db, Default()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:262:10: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 262 | index(joiner); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:780:19: warning: implicitly-declared ‘seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >&)’ is deprecated [-Wdeprecated-copy] 780 | dbIndex.index = TIndex(db.text); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: because ‘seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = seqan::Tag]’ 86 | Index(Index const & other) : | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h: In instantiation of ‘void buildQuery(DbIndex >, seqan::Tag >&, Db&, TSeedLength) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndexSpec = seqan::Tag; TDbSpec = void; TSeedLength = unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:366:15: required from ‘void prepare(DbFinder&, Db&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 366 | buildQuery(dbFinder.queryIndex, value(dbFinder.query), dbFinder.minSeedLength); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:277:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 277 | prepare(joiner, db); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:902:32: warning: implicitly-declared ‘seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >&)’ is deprecated [-Wdeprecated-copy] 902 | dbIndex.index[seedSet] = TIndex(db.text); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: because ‘seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = seqan::Tag]’ 86 | Index(Index const & other) : | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h: In instantiation of ‘void build(DbIndex, TDbIndexSpec>&, Db&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndexSpec = seqan::IndexSa >; TDbIndexSpec = void; TDbSpec = void; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:347:10: required from ‘void index(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 347 | build(dbFinder.dbIndex, dbFinder.db, seqan::Exact()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:262:10: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 262 | index(joiner); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:328:37: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 328 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Exact()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:780:19: warning: implicitly-declared ‘seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >&)’ is deprecated [-Wdeprecated-copy] 780 | dbIndex.index = TIndex(db.text); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: because ‘seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = seqan::Tag]’ 86 | Index(Index const & other) : | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h: In instantiation of ‘void build(DbIndex, TDbIndexSpec>&, Db&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndexSpec = seqan::IndexSa >; TDbIndexSpec = void; TDbSpec = void; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:336:10: required from ‘void index(DbFinder&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 336 | build(dbFinder.dbIndex, dbFinder.db, Default()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:262:10: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 262 | index(joiner); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:332:41: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 332 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:780:19: warning: implicitly-declared ‘seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >&)’ is deprecated [-Wdeprecated-copy] 780 | dbIndex.index = TIndex(db.text); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: because ‘seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = seqan::Tag]’ 86 | Index(Index const & other) : | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h: In instantiation of ‘void buildQuery(DbIndex >, seqan::Tag >&, Db&, TSeedLength) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndexSpec = seqan::Tag; TDbSpec = void; TSeedLength = unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:366:15: required from ‘void prepare(DbFinder&, Db&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 366 | buildQuery(dbFinder.queryIndex, value(dbFinder.query), dbFinder.minSeedLength); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:277:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 277 | prepare(joiner, db); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:332:41: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 332 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:902:32: warning: implicitly-declared ‘seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >&)’ is deprecated [-Wdeprecated-copy] 902 | dbIndex.index[seedSet] = TIndex(db.text); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: because ‘seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = seqan::Tag]’ 86 | Index(Index const & other) : | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h: In instantiation of ‘void build(DbIndex, TDbIndexSpec>&, Db&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndexSpec = seqan::IndexSa >; TDbIndexSpec = void; TDbSpec = void; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:347:10: required from ‘void index(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 347 | build(dbFinder.dbIndex, dbFinder.db, seqan::Exact()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:262:10: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 262 | index(joiner); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:350:37: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 350 | return runJoiner(options, TDbGeo(), TDbGeoSaHuge(), Exact()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:780:19: warning: implicitly-declared ‘seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >&)’ is deprecated [-Wdeprecated-copy] 780 | dbIndex.index = TIndex(db.text); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: because ‘seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag]’ 86 | Index(Index const & other) : | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h: In instantiation of ‘void build(DbIndex, TDbIndexSpec>&, Db&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndexSpec = seqan::IndexSa >; TDbIndexSpec = void; TDbSpec = void; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:336:10: required from ‘void index(DbFinder&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 336 | build(dbFinder.dbIndex, dbFinder.db, Default()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:262:10: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 262 | index(joiner); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:354:41: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 354 | return runJoiner(options, TDbGeo(), TDbGeoSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:780:19: warning: implicitly-declared ‘seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >&)’ is deprecated [-Wdeprecated-copy] 780 | dbIndex.index = TIndex(db.text); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: because ‘seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag]’ 86 | Index(Index const & other) : | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h: In instantiation of ‘void buildQuery(DbIndex >, seqan::Tag >&, Db&, TSeedLength) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndexSpec = seqan::Tag; TDbSpec = void; TSeedLength = unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:366:15: required from ‘void prepare(DbFinder&, Db&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 366 | buildQuery(dbFinder.queryIndex, value(dbFinder.query), dbFinder.minSeedLength); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:277:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 277 | prepare(joiner, db); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:354:41: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 354 | return runJoiner(options, TDbGeo(), TDbGeoSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:902:32: warning: implicitly-declared ‘seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >&)’ is deprecated [-Wdeprecated-copy] 902 | dbIndex.index[seedSet] = TIndex(db.text); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: because ‘seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag]’ 86 | Index(Index const & other) : | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h: In instantiation of ‘void build(DbIndex, TDbIndexSpec>&, Db&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndexSpec = seqan::IndexSa >; TDbIndexSpec = void; TDbSpec = void; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:347:10: required from ‘void index(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 347 | build(dbFinder.dbIndex, dbFinder.db, seqan::Exact()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:262:10: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 262 | index(joiner); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:362:37: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 362 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), Exact()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:780:19: warning: implicitly-declared ‘seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >&)’ is deprecated [-Wdeprecated-copy] 780 | dbIndex.index = TIndex(db.text); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: because ‘seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag]’ 86 | Index(Index const & other) : | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h: In instantiation of ‘void build(DbIndex, TDbIndexSpec>&, Db&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndexSpec = seqan::IndexSa >; TDbIndexSpec = void; TDbSpec = void; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:336:10: required from ‘void index(DbFinder&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 336 | build(dbFinder.dbIndex, dbFinder.db, Default()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:262:10: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 262 | index(joiner); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:366:41: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 366 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:780:19: warning: implicitly-declared ‘seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >&)’ is deprecated [-Wdeprecated-copy] 780 | dbIndex.index = TIndex(db.text); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: because ‘seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag]’ 86 | Index(Index const & other) : | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h: In instantiation of ‘void buildQuery(DbIndex >, seqan::Tag >&, Db&, TSeedLength) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndexSpec = seqan::Tag; TDbSpec = void; TSeedLength = unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:366:15: required from ‘void prepare(DbFinder&, Db&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 366 | buildQuery(dbFinder.queryIndex, value(dbFinder.query), dbFinder.minSeedLength); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:277:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 277 | prepare(joiner, db); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:366:41: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 366 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:902:32: warning: implicitly-declared ‘seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >&)’ is deprecated [-Wdeprecated-copy] 902 | dbIndex.index[seedSet] = TIndex(db.text); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: because ‘seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag]’ 86 | Index(Index const & other) : | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String, Alloc > >; TSpec = Owner >; TShape = Shape, UngappedShape<0> >; TDir = String >; TBucketMap = Nothing; TStepSize = unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1639:24: required from ‘void seqan::createQGramIndex(TSA&, TDir&, TBucketMap&, const TText&, TShape&, TStepSize) [with TSA = String >, Alloc<> >; TDir = String >; TBucketMap = Nothing; TText = StringSet, Alloc > >, Owner > >; TShape = Shape, UngappedShape<0> >; TStepSize = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 1639 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, stepSize, False()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:804:21: required from ‘void build(DbIndex, TDbIndexSpec>&, Db&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndexSpec = seqan::IndexSa >; TDbIndexSpec = void; TDbSpec = void; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 804 | createQGramIndex(sa, dir, nothing, text, shape, stepSize); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:347:10: required from ‘void index(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 347 | build(dbFinder.dbIndex, dbFinder.db, seqan::Exact()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:262:10: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 262 | index(joiner); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:316:37: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: 316 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Exact()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:86:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:55, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:71: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:126: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h: In instantiation of ‘void seqan::_historyClear(Iter > >&) [with TIndex = Index, Alloc > >, Owner > >, IndexSa > >; TSpec = Preorder]’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:292:18: required from ‘void seqan::goRoot(Iter >, VSTree >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag; TSpec = TopDown<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 292 | _historyClear(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:266:10: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 266 | goRoot(*this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: warning: implicitly-declared ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ is deprecated [-Wdeprecated-copy] 2147 | it._parentDesc = value(it); | ~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA >’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = seqan::SimpleType]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:103:8: warning: implicitly-declared ‘constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)’ is deprecated [-Wdeprecated-copy] 103 | struct VertexSA : public VertexEsa | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:125: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:290:17: note: because ‘seqan::VertexEsa’ has user-provided ‘seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]’ 290 | VertexEsa(VertexEsa const &other): | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: synthesized method ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ first required here 2147 | it._parentDesc = value(it); | ~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String, Alloc > >; TSpec = Owner >; TShape = Shape, UngappedShape<0> >; TDir = String >; TBucketMap = Nothing; TStepSize = unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1639:24: required from ‘void seqan::createQGramIndex(TSA&, TDir&, TBucketMap&, const TText&, TShape&, TStepSize) [with TSA = String >, Alloc<> >; TDir = String >; TBucketMap = Nothing; TText = StringSet, Alloc > >, Owner > >; TShape = Shape, UngappedShape<0> >; TStepSize = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: 1639 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, stepSize, False()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:804:21: required from ‘void build(DbIndex, TDbIndexSpec>&, Db&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndexSpec = seqan::IndexSa >; TDbIndexSpec = void; TDbSpec = void; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: 804 | createQGramIndex(sa, dir, nothing, text, shape, stepSize); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:347:10: required from ‘void index(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: 347 | build(dbFinder.dbIndex, dbFinder.db, seqan::Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:262:10: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: 262 | index(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: | ~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:328:37: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: 328 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:56: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h: In instantiation of ‘void seqan::_historyClear(Iter > >&) [with TIndex = Index, Alloc > >, Owner > >, IndexSa > >; TSpec = Preorder]’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:292:18: required from ‘void seqan::goRoot(Iter >, VSTree >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag; TSpec = TopDown<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 292 | _historyClear(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:266:10: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 266 | goRoot(*this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:332:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 332 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: warning: implicitly-declared ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ is deprecated [-Wdeprecated-copy] 2147 | it._parentDesc = value(it); | ~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA >’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = seqan::SimpleType]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String > >; TSpec = Owner >; TShape = Shape >; TDir = String >; TBucketMap = Nothing; TStepSize = unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1639:24: required from ‘void seqan::createQGramIndex(TSA&, TDir&, TBucketMap&, const TText&, TShape&, TStepSize) [with TSA = String >, Alloc<> >; TDir = String >; TBucketMap = Nothing; TText = StringSet > >, Owner > >; TShape = Shape >; TStepSize = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 1639 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, stepSize, False()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:804:21: required from ‘void build(DbIndex, TDbIndexSpec>&, Db&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndexSpec = seqan::IndexSa >; TDbIndexSpec = void; TDbSpec = void; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 804 | createQGramIndex(sa, dir, nothing, text, shape, stepSize); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:347:10: required from ‘void index(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 347 | build(dbFinder.dbIndex, dbFinder.db, seqan::Exact()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:262:10: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 262 | index(joiner); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:350:37: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 350 | return runJoiner(options, TDbGeo(), TDbGeoSaHuge(), Exact()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h: In instantiation of ‘void seqan::_historyClear(Iter > >&) [with TIndex = Index > >, Owner > >, IndexSa > >; TSpec = Preorder]’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:292:18: required from ‘void seqan::goRoot(Iter >, VSTree >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag; TSpec = TopDown<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 292 | _historyClear(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:266:10: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 266 | goRoot(*this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:354:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 354 | return runJoiner(options, TDbGeo(), TDbGeoSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: warning: implicitly-declared ‘constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)’ is deprecated [-Wdeprecated-copy] 2147 | it._parentDesc = value(it); | ~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h: In instantiation of ‘void seqan::_qgramFillSuffixArray(TSA&, const StringSet&, TShape, TDir&, TBucketMap&, TStepSize, TWithConstraints) [with TSA = String >, Alloc<> >; TString = String > >; TSpec = Owner >; TShape = Shape >; TDir = String >; TBucketMap = Nothing; TStepSize = unsigned int; TWithConstraints = False]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1639:24: required from ‘void seqan::createQGramIndex(TSA&, TDir&, TBucketMap&, const TText&, TShape&, TStepSize) [with TSA = String >, Alloc<> >; TDir = String >; TBucketMap = Nothing; TText = StringSet > >, Owner > >; TShape = Shape >; TStepSize = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 1639 | _qgramFillSuffixArray(sa, text, shape, dir, bucketMap, stepSize, False()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:804:21: required from ‘void build(DbIndex, TDbIndexSpec>&, Db&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndexSpec = seqan::IndexSa >; TDbIndexSpec = void; TDbSpec = void; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 804 | createQGramIndex(sa, dir, nothing, text, shape, stepSize); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:347:10: required from ‘void index(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 347 | build(dbFinder.dbIndex, dbFinder.db, seqan::Exact()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:262:10: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 262 | index(joiner); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:362:37: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 362 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), Exact()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1448:87: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1448 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1450:98: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1450 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // first hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1458:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1458 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1460:110: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1460 | sa[dir[getBucket(bucketMap, hashNext(shape, itText)) + 1]++] = localPos; // next hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1480:95: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1480 | if (dir[bktNo] != (TSize)-1) sa[dir[bktNo]++] = localPos; // if bucket is enabled | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1482:106: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1482 | sa[dir[getBucket(bucketMap, hash(shape, itText)) + 1]++] = localPos; // hash | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h: In instantiation of ‘void seqan::_historyClear(Iter > >&) [with TIndex = Index > >, Owner > >, IndexSa > >; TSpec = Preorder]’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:292:18: required from ‘void seqan::goRoot(Iter >, VSTree >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag; TSpec = TopDown<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 292 | _historyClear(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:266:10: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 266 | goRoot(*this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:366:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 366 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2147:24: warning: implicitly-declared ‘constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)’ is deprecated [-Wdeprecated-copy] 2147 | it._parentDesc = value(it); | ~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_iterator.h:65, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:86: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment, seqan::Alloc > >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1634:47: required from ‘unsigned int seqan::_computeEditDistanceBanded(const TSeq1&, const TSeq2&, unsigned int) [with TSeq1 = Segment, Alloc > >, InfixSegment>; TSeq2 = Segment, Alloc > >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 1634 | typename Iterator::Type seq1Iter = begin(seq1, Rooted()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/verifier.h:136:52: required from ‘bool _verify(Verifier&, typename seqan::Size >::Type, typename seqan::Size >::Type, TDelegate&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >; typename seqan::Size >::Type = unsigned int; typename seqan::Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 136 | TErrors errors = _computeEditDistanceBanded(text1, text2, maxErrors); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/verifier.h:78:23: required from ‘bool Verifier::operator()(typename seqan::Size >::Type, typename seqan::Size >::Type, TDelegate&) [with TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >; TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = void; typename seqan::Size >::Type = unsigned int; typename seqan::Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 78 | return _verify(*this, dbId, queryId, delegate); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:783:30: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Nothing; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 783 | dbFinder.verifier(dbId1, dbId2, dbFinder.delegate); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Nothing; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:309:29: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 309 | return runJoiner(options, TDbDna(), Nothing(), Online()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:147:15: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc > >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc > >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 147 | : data_container(other_.data_container), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:93, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:52: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc > >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc > >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h: In instantiation of ‘void seqan::_clear(Iter >&) [with TIndex = Index, Alloc > >, Owner > >, IndexSa > >; TSpec = TopDown<>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2751:9: required from ‘void seqan::clear(Iter >&) [with TIndex = Index, Alloc > >, Owner > >, IndexSa > >; TSpec = TopDown<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2751 | _clear(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:293:10: required from ‘void seqan::goRoot(Iter >, VSTree >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag; TSpec = TopDown<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 293 | clear(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:266:10: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 266 | goRoot(*this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2745:27: warning: implicitly-declared ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ is deprecated [-Wdeprecated-copy] 2745 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA >’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = seqan::SimpleType]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h: In instantiation of ‘bool seqan::_moveIteratorsRight(Finder2, Index, Backtracking, TSpec> >&, const StageExact_&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TSpec = Tag]’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:587:28: required from ‘bool seqan::_nextState(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageExact_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 587 | if (_moveIteratorsRight(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1277:38: required from ‘void seqan::_find(Finder2, Index, Backtracking >&, TDelegate&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageExact_; TDelegate = DbFinder, Alloc > >, Owner > >, Index, Alloc > >, Owner > >, IndexSa > >, void, Writer, Alloc > >, Owner > >, void>, Db, Alloc > >, Owner > >, void>, Tag >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 1277 | while (_nextState(finder, TStage())); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1254:14: required from ‘void seqan::_find(Finder2, Index, Backtracking >&, TDelegate&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_; TDelegate = DbFinder, Alloc > >, Owner > >, Index, Alloc > >, Owner > >, IndexSa > >, void, Writer, Alloc > >, Owner > >, void>, Db, Alloc > >, Owner > >, void>, Tag >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 1254 | _find(finder, delegate, StageExact_()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:603:14: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 603 | _find(finderExt, dbFinder, StageInitial_()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:244:15: warning: implicitly-declared ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ is deprecated [-Wdeprecated-copy] 244 | class Iter< TIndex, VSTree< TopDown > > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA >’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = seqan::SimpleType]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:244:15: warning: implicitly-declared ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ is deprecated [-Wdeprecated-copy] 244 | class Iter< TIndex, VSTree< TopDown > > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA >’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = seqan::SimpleType]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index_extras.h:65: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: synthesized method ‘seqan::Iter, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >& seqan::Iter, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >::operator=(const seqan::Iter, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >&)’ first required here 651 | back(finder.textStack) = finder.textStack[length(finder.textStack) - 2]; | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h: In instantiation of ‘void seqan::_clear(Iter >&) [with TIndex = Index, Alloc > >, Owner > >, IndexSa > >; TSpec = TopDown<>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2751:9: required from ‘void seqan::clear(Iter >&) [with TIndex = Index, Alloc > >, Owner > >, IndexSa > >; TSpec = TopDown<>]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: 2751 | _clear(it); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:293:10: required from ‘void seqan::goRoot(Iter >, VSTree >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag; TSpec = TopDown<>]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: 293 | clear(it); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:266:10: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: 266 | goRoot(*this); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: | ~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:332:41: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: 332 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2745:27: warning: implicitly-declared ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ is deprecated [-Wdeprecated-copy] 2745 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA >’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = seqan::SimpleType]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h: In instantiation of ‘bool seqan::_moveIteratorsRight(Finder2, Index, Backtracking, TSpec> >&, const StageExact_&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TSpec = Tag]’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:587:28: required from ‘bool seqan::_nextState(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageExact_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 587 | if (_moveIteratorsRight(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1277:38: required from ‘void seqan::_find(Finder2, Index, Backtracking >&, TDelegate&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageExact_; TDelegate = DbFinder, Alloc > >, Owner > >, Index, Alloc > >, Owner > >, IndexSa > >, void, Writer, Alloc > >, Owner > >, void>, Db, Alloc > >, Owner > >, void>, Tag >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 1277 | while (_nextState(finder, TStage())); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1254:14: required from ‘void seqan::_find(Finder2, Index, Backtracking >&, TDelegate&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_; TDelegate = DbFinder, Alloc > >, Owner > >, Index, Alloc > >, Owner > >, IndexSa > >, void, Writer, Alloc > >, Owner > >, void>, Db, Alloc > >, Owner > >, void>, Tag >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 1254 | _find(finder, delegate, StageExact_()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:603:14: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 603 | _find(finderExt, dbFinder, StageInitial_()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:332:41: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 332 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:244:15: warning: implicitly-declared ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ is deprecated [-Wdeprecated-copy] 244 | class Iter< TIndex, VSTree< TopDown > > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA >’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = seqan::SimpleType]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:244:15: warning: implicitly-declared ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ is deprecated [-Wdeprecated-copy] 244 | class Iter< TIndex, VSTree< TopDown > > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA >’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = seqan::SimpleType]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: synthesized method ‘seqan::Iter, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >& seqan::Iter, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >::operator=(const seqan::Iter, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >&)’ first required here 651 | back(finder.textStack) = finder.textStack[length(finder.textStack) - 2]; | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h: In instantiation of ‘seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment > >, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1634:47: required from ‘unsigned int seqan::_computeEditDistanceBanded(const TSeq1&, const TSeq2&, unsigned int) [with TSeq1 = Segment > >, InfixSegment>; TSeq2 = Segment > >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: 1634 | typename Iterator::Type seq1Iter = begin(seq1, Rooted()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/verifier.h:136:52: required from ‘bool _verify(Verifier&, typename seqan::Size >::Type, typename seqan::Size >::Type, TDelegate&) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >; typename seqan::Size >::Type = unsigned int; typename seqan::Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: 136 | TErrors errors = _computeEditDistanceBanded(text1, text2, maxErrors); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/verifier.h:78:23: required from ‘bool Verifier::operator()(typename seqan::Size >::Type, typename seqan::Size >::Type, TDelegate&) [with TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >; TText = seqan::StringSet > >, seqan::Owner > >; TSpec = void; typename seqan::Size >::Type = unsigned int; typename seqan::Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: 78 | return _verify(*this, dbId, queryId, delegate); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:783:30: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Nothing; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: 783 | dbFinder.verifier(dbId1, dbId2, dbFinder.delegate); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Nothing; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:343:29: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: 343 | return runJoiner(options, TDbGeo(), Nothing(), Online()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:651:32: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:147:15: warning: implicitly-declared ‘constexpr seqan::Segment > >, seqan::InfixSegment>::Segment(const seqan::Segment > >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 147 | : data_container(other_.data_container), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment > >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String > >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h: In instantiation of ‘void seqan::_clear(Iter >&) [with TIndex = Index > >, Owner > >, IndexSa > >; TSpec = TopDown<>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2751:9: required from ‘void seqan::clear(Iter >&) [with TIndex = Index > >, Owner > >, IndexSa > >; TSpec = TopDown<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 2751 | _clear(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:293:10: required from ‘void seqan::goRoot(Iter >, VSTree >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag; TSpec = TopDown<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 293 | clear(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:266:10: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 266 | goRoot(*this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:354:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 354 | return runJoiner(options, TDbGeo(), TDbGeoSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2745:27: warning: implicitly-declared ‘constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)’ is deprecated [-Wdeprecated-copy] 2745 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h: In instantiation of ‘void seqan::_clear(Iter >&) [with TIndex = Index > >, Owner > >, IndexSa > >; TSpec = TopDown<>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2751:9: required from ‘void seqan::clear(Iter >&) [with TIndex = Index > >, Owner > >, IndexSa > >; TSpec = TopDown<>]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 2751 | _clear(it); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:293:10: required from ‘void seqan::goRoot(Iter >, VSTree >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag; TSpec = TopDown<>]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 293 | clear(it); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:266:10: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 266 | goRoot(*this); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:366:41: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 366 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2745:27: warning: implicitly-declared ‘constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)’ is deprecated [-Wdeprecated-copy] 2745 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment, Alloc > >, InfixSegment>; typename Iterator >::Type = Iter, Alloc > >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment, Alloc > >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc > >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1634:63: required from ‘unsigned int seqan::_computeEditDistanceBanded(const TSeq1&, const TSeq2&, unsigned int) [with TSeq1 = Segment, Alloc > >, InfixSegment>; TSeq2 = Segment, Alloc > >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 1634 | typename Iterator::Type seq1Iter = begin(seq1, Rooted()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/verifier.h:136:52: required from ‘bool _verify(Verifier&, typename seqan::Size >::Type, typename seqan::Size >::Type, TDelegate&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >; typename seqan::Size >::Type = unsigned int; typename seqan::Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 136 | TErrors errors = _computeEditDistanceBanded(text1, text2, maxErrors); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/verifier.h:78:23: required from ‘bool Verifier::operator()(typename seqan::Size >::Type, typename seqan::Size >::Type, TDelegate&) [with TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >; TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = void; typename seqan::Size >::Type = unsigned int; typename seqan::Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 78 | return _verify(*this, dbId, queryId, delegate); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:783:30: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Nothing; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 783 | dbFinder.verifier(dbId1, dbId2, dbFinder.delegate); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Nothing; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:309:29: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 309 | return runJoiner(options, TDbDna(), Nothing(), Online()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc > >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc > >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 541 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc > >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc > >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc > >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc > >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h: In instantiation of ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment > >, InfixSegment>; typename Iterator >::Type = Iter > >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment > >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter > >, InfixSegment>, AdaptorIterator > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1634:63: required from ‘unsigned int seqan::_computeEditDistanceBanded(const TSeq1&, const TSeq2&, unsigned int) [with TSeq1 = Segment > >, InfixSegment>; TSeq2 = Segment > >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1634 | typename Iterator::Type seq1Iter = begin(seq1, Rooted()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/verifier.h:136:52: required from ‘bool _verify(Verifier&, typename seqan::Size >::Type, typename seqan::Size >::Type, TDelegate&) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >; typename seqan::Size >::Type = unsigned int; typename seqan::Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 136 | TErrors errors = _computeEditDistanceBanded(text1, text2, maxErrors); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/verifier.h:78:23: required from ‘bool Verifier::operator()(typename seqan::Size >::Type, typename seqan::Size >::Type, TDelegate&) [with TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >; TText = seqan::StringSet > >, seqan::Owner > >; TSpec = void; typename seqan::Size >::Type = unsigned int; typename seqan::Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 78 | return _verify(*this, dbId, queryId, delegate); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:783:30: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Nothing; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 783 | dbFinder.verifier(dbId1, dbId2, dbFinder.delegate); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Nothing; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:343:29: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 343 | return runJoiner(options, TDbGeo(), Nothing(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: warning: implicitly-declared ‘constexpr seqan::Segment > >, seqan::InfixSegment>::Segment(const seqan::Segment > >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 541 | return TIterator(me, begin(me, Standard())); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment > >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String > >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: initializing argument 1 of ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment > >, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment > >, seqan::InfixSegment>]’ 138 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h: In instantiation of ‘void seqan::_historyPush(Iter >, VSTree > >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag; TSpec = Preorder]’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:360:17: required from ‘bool seqan::_goDown(Iter >, VSTree > >&, VSTreeIteratorTraits) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag; TSpec = Preorder; TDfsOrder = Preorder_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 360 | _historyPush(it); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2296:14: required from ‘bool seqan::goDown(Iter > >&) [with TIndex = Index, Alloc > >, Owner > >, IndexSa > >; TSpec = Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 2296 | if (_goDown(it, typename GetVSTreeIteratorTraits< Iter > > >::Type())) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:527:18: required from ‘bool seqan::_moveIteratorsDown(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 527 | return goDown(back(finder.textStack)) && goDown(back(finder.patternStack)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:432:27: required from ‘bool seqan::_pushState(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 432 | if (_moveIteratorsDown(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31: required from ‘void seqan::_find(Finder2, Index, Backtracking >&, TDelegate&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_; TDelegate = DbFinder, Alloc > >, Owner > >, Index, Alloc > >, Owner > >, IndexSa > >, void, Writer, Alloc > >, Owner > >, void>, Db, Alloc > >, Owner > >, void>, Tag >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 1271 | if (_pushState(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:603:14: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 603 | _find(finderExt, dbFinder, StageInitial_()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:138:48: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:619:20: warning: implicitly-declared ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ is deprecated [-Wdeprecated-copy] 619 | it._parentDesc = value(it); | ~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA >’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = seqan::SimpleType]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h: In instantiation of ‘void seqan::_historyPush(Iter >, VSTree > >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag; TSpec = Truncated]’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:360:17: required from ‘bool seqan::_goDown(Iter >, VSTree > >&, VSTreeIteratorTraits) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag; TSpec = Truncated; TDfsOrder = Preorder_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 360 | _historyPush(it); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2296:14: required from ‘bool seqan::goDown(Iter > >&) [with TIndex = Index, Alloc > >, Owner > >, IndexSa > >; TSpec = Truncated]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 2296 | if (_goDown(it, typename GetVSTreeIteratorTraits< Iter > > >::Type())) { /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:527:52: required from ‘bool seqan::_moveIteratorsDown(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 527 | return goDown(back(finder.textStack)) && goDown(back(finder.patternStack)); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:432:27: required from ‘bool seqan::_pushState(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 432 | if (_moveIteratorsDown(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31: required from ‘void seqan::_find(Finder2, Index, Backtracking >&, TDelegate&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_; TDelegate = DbFinder, Alloc > >, Owner > >, Index, Alloc > >, Owner > >, IndexSa > >, void, Writer, Alloc > >, Owner > >, void>, Db, Alloc > >, Owner > >, void>, Tag >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 1271 | if (_pushState(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:603:14: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 603 | _find(finderExt, dbFinder, StageInitial_()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:619:20: warning: implicitly-declared ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ is deprecated [-Wdeprecated-copy] 619 | it._parentDesc = value(it); | ~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA >’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = seqan::SimpleType]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h: In instantiation of ‘void seqan::_historyPush(Iter >, VSTree > >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag; TSpec = Preorder]’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:360:17: required from ‘bool seqan::_goDown(Iter >, VSTree > >&, VSTreeIteratorTraits) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag; TSpec = Preorder; TDfsOrder = Preorder_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 360 | _historyPush(it); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2296:14: required from ‘bool seqan::goDown(Iter > >&) [with TIndex = Index, Alloc > >, Owner > >, IndexSa > >; TSpec = Preorder]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 2296 | if (_goDown(it, typename GetVSTreeIteratorTraits< Iter > > >::Type())) { /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:527:18: required from ‘bool seqan::_moveIteratorsDown(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 527 | return goDown(back(finder.textStack)) && goDown(back(finder.patternStack)); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:432:27: required from ‘bool seqan::_pushState(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 432 | if (_moveIteratorsDown(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31: required from ‘void seqan::_find(Finder2, Index, Backtracking >&, TDelegate&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_; TDelegate = DbFinder, Alloc > >, Owner > >, Index, Alloc > >, Owner > >, IndexSa > >, void, Writer, Alloc > >, Owner > >, void>, Db, Alloc > >, Owner > >, void>, Tag >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 1271 | if (_pushState(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:603:14: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 603 | _find(finderExt, dbFinder, StageInitial_()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:332:41: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 332 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:619:20: warning: implicitly-declared ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ is deprecated [-Wdeprecated-copy] 619 | it._parentDesc = value(it); | ~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA >’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = seqan::SimpleType]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h: In instantiation of ‘void seqan::_historyPush(Iter >, VSTree > >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag; TSpec = Truncated]’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:360:17: required from ‘bool seqan::_goDown(Iter >, VSTree > >&, VSTreeIteratorTraits) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag; TSpec = Truncated; TDfsOrder = Preorder_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 360 | _historyPush(it); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2296:14: required from ‘bool seqan::goDown(Iter > >&) [with TIndex = Index, Alloc > >, Owner > >, IndexSa > >; TSpec = Truncated]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 2296 | if (_goDown(it, typename GetVSTreeIteratorTraits< Iter > > >::Type())) { /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:527:52: required from ‘bool seqan::_moveIteratorsDown(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 527 | return goDown(back(finder.textStack)) && goDown(back(finder.patternStack)); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:432:27: required from ‘bool seqan::_pushState(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 432 | if (_moveIteratorsDown(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31: required from ‘void seqan::_find(Finder2, Index, Backtracking >&, TDelegate&, const TStage&) [with TText = StringSet, Alloc > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet, Alloc > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_; TDelegate = DbFinder, Alloc > >, Owner > >, Index, Alloc > >, Owner > >, IndexSa > >, void, Writer, Alloc > >, Owner > >, void>, Db, Alloc > >, Owner > >, void>, Tag >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 1271 | if (_pushState(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:603:14: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 603 | _find(finderExt, dbFinder, StageInitial_()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:332:41: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 332 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:619:20: warning: implicitly-declared ‘seqan::VertexSA >& seqan::VertexSA >::operator=(const seqan::VertexSA >&)’ is deprecated [-Wdeprecated-copy] 619 | it._parentDesc = value(it); | ~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA >’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = seqan::SimpleType]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h: In instantiation of ‘void seqan::_historyPush(Iter >, VSTree > >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag; TSpec = Preorder]’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:360:17: required from ‘bool seqan::_goDown(Iter >, VSTree > >&, VSTreeIteratorTraits) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag; TSpec = Preorder; TDfsOrder = Preorder_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 360 | _historyPush(it); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2296:14: required from ‘bool seqan::goDown(Iter > >&) [with TIndex = Index > >, Owner > >, IndexSa > >; TSpec = Preorder]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 2296 | if (_goDown(it, typename GetVSTreeIteratorTraits< Iter > > >::Type())) { /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:527:18: required from ‘bool seqan::_moveIteratorsDown(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 527 | return goDown(back(finder.textStack)) && goDown(back(finder.patternStack)); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:432:27: required from ‘bool seqan::_pushState(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 432 | if (_moveIteratorsDown(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31: required from ‘void seqan::_find(Finder2, Index, Backtracking >&, TDelegate&, const TStage&) [with TText = StringSet > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_; TDelegate = DbFinder > >, Owner > >, Index > >, Owner > >, IndexSa > >, void, Writer > >, Owner > >, void>, Db > >, Owner > >, void>, Tag >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 1271 | if (_pushState(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:603:14: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 603 | _find(finderExt, dbFinder, StageInitial_()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:354:41: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 354 | return runJoiner(options, TDbGeo(), TDbGeoSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:619:20: warning: implicitly-declared ‘constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)’ is deprecated [-Wdeprecated-copy] 619 | it._parentDesc = value(it); | ~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h: In instantiation of ‘void seqan::_historyPush(Iter >, VSTree > >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag; TSpec = Truncated]’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:360:17: required from ‘bool seqan::_goDown(Iter >, VSTree > >&, VSTreeIteratorTraits) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag; TSpec = Truncated; TDfsOrder = Preorder_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 360 | _historyPush(it); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2296:14: required from ‘bool seqan::goDown(Iter > >&) [with TIndex = Index > >, Owner > >, IndexSa > >; TSpec = Truncated]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 2296 | if (_goDown(it, typename GetVSTreeIteratorTraits< Iter > > >::Type())) { /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:527:52: required from ‘bool seqan::_moveIteratorsDown(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 527 | return goDown(back(finder.textStack)) && goDown(back(finder.patternStack)); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:432:27: required from ‘bool seqan::_pushState(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 432 | if (_moveIteratorsDown(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31: required from ‘void seqan::_find(Finder2, Index, Backtracking >&, TDelegate&, const TStage&) [with TText = StringSet > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_; TDelegate = DbFinder > >, Owner > >, Index > >, Owner > >, IndexSa > >, void, Writer > >, Owner > >, void>, Db > >, Owner > >, void>, Tag >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 1271 | if (_pushState(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:603:14: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 603 | _find(finderExt, dbFinder, StageInitial_()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:354:41: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 354 | return runJoiner(options, TDbGeo(), TDbGeoSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:619:20: warning: implicitly-declared ‘constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)’ is deprecated [-Wdeprecated-copy] 619 | it._parentDesc = value(it); | ~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h: In instantiation of ‘void seqan::_historyPush(Iter >, VSTree > >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag; TSpec = Preorder]’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:360:17: required from ‘bool seqan::_goDown(Iter >, VSTree > >&, VSTreeIteratorTraits) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag; TSpec = Preorder; TDfsOrder = Preorder_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 360 | _historyPush(it); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2296:14: required from ‘bool seqan::goDown(Iter > >&) [with TIndex = Index > >, Owner > >, IndexSa > >; TSpec = Preorder]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 2296 | if (_goDown(it, typename GetVSTreeIteratorTraits< Iter > > >::Type())) { /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:527:18: required from ‘bool seqan::_moveIteratorsDown(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 527 | return goDown(back(finder.textStack)) && goDown(back(finder.patternStack)); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:432:27: required from ‘bool seqan::_pushState(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 432 | if (_moveIteratorsDown(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31: required from ‘void seqan::_find(Finder2, Index, Backtracking >&, TDelegate&, const TStage&) [with TText = StringSet > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_; TDelegate = DbFinder > >, Owner > >, Index > >, Owner > >, IndexSa > >, void, Writer > >, Owner > >, void>, Db > >, Owner > >, void>, Tag >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 1271 | if (_pushState(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:603:14: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 603 | _find(finderExt, dbFinder, StageInitial_()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:366:41: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 366 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:619:20: warning: implicitly-declared ‘constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)’ is deprecated [-Wdeprecated-copy] 619 | it._parentDesc = value(it); | ~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h: In instantiation of ‘void seqan::_historyPush(Iter >, VSTree > >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag; TSpec = Truncated]’: /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:360:17: required from ‘bool seqan::_goDown(Iter >, VSTree > >&, VSTreeIteratorTraits) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag; TSpec = Truncated; TDfsOrder = Preorder_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 360 | _historyPush(it); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:2296:14: required from ‘bool seqan::goDown(Iter > >&) [with TIndex = Index > >, Owner > >, IndexSa > >; TSpec = Truncated]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 2296 | if (_goDown(it, typename GetVSTreeIteratorTraits< Iter > > >::Type())) { /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:527:52: required from ‘bool seqan::_moveIteratorsDown(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 527 | return goDown(back(finder.textStack)) && goDown(back(finder.patternStack)); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:432:27: required from ‘bool seqan::_pushState(Finder2, Index, Backtracking >&, const TStage&) [with TText = StringSet > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 432 | if (_moveIteratorsDown(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31: required from ‘void seqan::_find(Finder2, Index, Backtracking >&, TDelegate&, const TStage&) [with TText = StringSet > >, Owner > >; TTextIndexSpec = IndexSa >; TPattern = StringSet > >, Owner > >; TPatternIndexSpec = IndexSa >; TDistance = Tag; TSpec = Tag; TStage = StageInitial_; TDelegate = DbFinder > >, Owner > >, Index > >, Owner > >, IndexSa > >, void, Writer > >, Owner > >, void>, Db > >, Owner > >, void>, Tag >, Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 1271 | if (_pushState(finder, TStage())) /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:603:14: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 603 | _find(finderExt, dbFinder, StageInitial_()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:366:41: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 366 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:619:20: warning: implicitly-declared ‘constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)’ is deprecated [-Wdeprecated-copy] 619 | it._parentDesc = value(it); | ~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: because ‘seqan::VertexSA’ has user-provided ‘seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]’ 122 | VertexSA(VertexSA const & other) : | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:92: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String, Alloc > >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc > >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:139:40: required from ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc > >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc > >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 139 | : data_container(_toPointer(container_)), /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: required from ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment, Alloc > >, InfixSegment>; typename Iterator >::Type = Iter, Alloc > >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 541 | return TIterator(me, begin(me, Standard())); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment, Alloc > >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc > >, InfixSegment>, AdaptorIterator*, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1634:63: required from ‘unsigned int seqan::_computeEditDistanceBanded(const TSeq1&, const TSeq2&, unsigned int) [with TSeq1 = Segment, Alloc > >, InfixSegment>; TSeq2 = Segment, Alloc > >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 1634 | typename Iterator::Type seq1Iter = begin(seq1, Rooted()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/verifier.h:136:52: required from ‘bool _verify(Verifier&, typename seqan::Size >::Type, typename seqan::Size >::Type, TDelegate&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >; typename seqan::Size >::Type = unsigned int; typename seqan::Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 136 | TErrors errors = _computeEditDistanceBanded(text1, text2, maxErrors); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/verifier.h:78:23: required from ‘bool Verifier::operator()(typename seqan::Size >::Type, typename seqan::Size >::Type, TDelegate&) [with TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >; TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = void; typename seqan::Size >::Type = unsigned int; typename seqan::Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 78 | return _verify(*this, dbId, queryId, delegate); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:783:30: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Nothing; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 783 | dbFinder.verifier(dbId1, dbId2, dbFinder.delegate); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Nothing; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:309:29: required from here /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: 309 | return runJoiner(options, TDbDna(), Nothing(), Online()); /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:122:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment, seqan::Alloc > >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc > >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment, seqan::Alloc > >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc > >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h: In instantiation of ‘typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String > >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment > >, InfixSegment>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/iterator_adaptor.h:139:40: required from ‘seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment > >, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment > >, seqan::InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 139 | : data_container(_toPointer(container_)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:541:12: required from ‘typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment > >, InfixSegment>; typename Iterator >::Type = Iter > >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 541 | return TIterator(me, begin(me, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:624:25: required from ‘typename seqan::Iterator >::Type seqan::begin(const T&, Tag) [with T = Segment > >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter > >, InfixSegment>, AdaptorIterator > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 624 | return _beginDefault(me, tag_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_myers_ukkonen.h:1634:63: required from ‘unsigned int seqan::_computeEditDistanceBanded(const TSeq1&, const TSeq2&, unsigned int) [with TSeq1 = Segment > >, InfixSegment>; TSeq2 = Segment > >, InfixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 1634 | typename Iterator::Type seq1Iter = begin(seq1, Rooted()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/verifier.h:136:52: required from ‘bool _verify(Verifier&, typename seqan::Size >::Type, typename seqan::Size >::Type, TDelegate&) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >; typename seqan::Size >::Type = unsigned int; typename seqan::Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 136 | TErrors errors = _computeEditDistanceBanded(text1, text2, maxErrors); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/verifier.h:78:23: required from ‘bool Verifier::operator()(typename seqan::Size >::Type, typename seqan::Size >::Type, TDelegate&) [with TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >; TText = seqan::StringSet > >, seqan::Owner > >; TSpec = void; typename seqan::Size >::Type = unsigned int; typename seqan::Size >::Type = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 78 | return _verify(*this, dbId, queryId, delegate); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:783:30: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Nothing; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 783 | dbFinder.verifier(dbId1, dbId2, dbFinder.delegate); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Nothing; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:343:29: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 343 | return runJoiner(options, TDbGeo(), Nothing(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_base.h:470:12: warning: implicitly-declared ‘constexpr seqan::Segment > >, seqan::InfixSegment>::Segment(const seqan::Segment > >, seqan::InfixSegment>&)’ is deprecated [-Wdeprecated-copy] 470 | return me; | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: because ‘seqan::Segment > >, seqan::InfixSegment>’ has user-provided ‘seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String > >]’ 197 | operator = (Segment const & source) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:56: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Alloc > >; TSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 110 | suffixArray << creator; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc > >; TSetSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc > >, Owner > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/segment_infix.h:197:5: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:802:19: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 802 | *_cur = *src; | ~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Alloc > >; TSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 110 | suffixArray << creator; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc > >; TSetSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc > >, Owner > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:332:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 332 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:802:19: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 802 | *_cur = *src; | ~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, String > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String > >; TSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 110 | suffixArray << creator; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String > >; TSetSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >, Owner > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:354:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 354 | return runJoiner(options, TDbGeo(), TDbGeoSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:802:19: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 802 | *_cur = *src; | ~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, String > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String > >; TSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 110 | suffixArray << creator; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String > >; TSetSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >, Owner > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:366:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 366 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:802:19: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 802 | *_cur = *src; | ~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:98: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h: In instantiation of ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Alloc > >; TSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 108 | creator_t creator(unsigner, stringSetLimits(stringSet)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc > >; TSetSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc > >, Owner > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:347:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 347 | o1.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:357:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 357 | o0.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:361:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | o3.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:365:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 365 | o5.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:369:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 369 | o6.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:395:125: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 395 | /* 6 */ cp___(o6,0, *textIn); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:398:126: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 398 | /* 5 */ cp___(o5,0,cp___(o6,1, *textIn)); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:401:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 401 | /* 4 */ o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:405:127: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 405 | /* 3 */ cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:408:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 408 | /* 2 */ o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:412:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 412 | /* 1 */ o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:424:128: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 424 | /* 0 */ cp___(o0,0,cp___(o1,1,cp___(o2,2,cp___(o3,3, *textIn)))); ++textIn; o0.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:426:129: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 426 | /* 6 */ cp___(o0,1,cp___(o1,2,cp___(o2,3,cp___(o3,4, cp___(o6,0, *textIn))))); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:428:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 428 | /* 5 */ cp___(o0,2,cp___(o1,3,cp___(o2,4,cp___(o3,5, cp___(o5,0,cp___(o6,1, *textIn)))))); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:430:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 430 | /* 4 */ o0.i2[0] = o1.i2[1] = o2.i2[2] = o3.i2[2] = o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:435:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 435 | /* 3 */ cp___(o0,4,cp___(o1,5, cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:437:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 437 | /* 2 */ o0.i2[1] = o1.i2[2] = o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:441:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 441 | /* 1 */ o0.i2[2] = o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:454:128: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 454 | /* 0 */ cp___(o0,0,cp___(o1,1,cp___(o2,2,cp___(o3,3, *textIn)))); ++textIn; o0.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:456:129: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 456 | /* 6 */ cp___(o0,1,cp___(o1,2,cp___(o2,3,cp___(o3,4, cp___(o6,0, *textIn))))); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:458:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 458 | /* 5 */ cp___(o0,2,cp___(o1,3,cp___(o2,4,cp___(o3,5, cp___(o5,0,cp___(o6,1, *textIn)))))); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:460:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 460 | /* 4 */ o0.i2[0] = o1.i2[1] = o2.i2[2] = o3.i2[2] = o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:465:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 465 | /* 3 */ cp___(o0,4,cp___(o1,5, cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:467:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 467 | /* 2 */ o0.i2[1] = o1.i2[2] = o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:471:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 471 | /* 1 */ o0.i2[2] = o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h: In instantiation of ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Alloc > >; TSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 108 | creator_t creator(unsigner, stringSetLimits(stringSet)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc > >; TSetSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc > >, Owner > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:332:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 332 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:347:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 347 | o1.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:357:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 357 | o0.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:361:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | o3.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:365:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 365 | o5.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:369:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 369 | o6.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:395:125: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 395 | /* 6 */ cp___(o6,0, *textIn); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:398:126: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 398 | /* 5 */ cp___(o5,0,cp___(o6,1, *textIn)); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:401:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 401 | /* 4 */ o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:405:127: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 405 | /* 3 */ cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:408:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 408 | /* 2 */ o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:412:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 412 | /* 1 */ o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:424:128: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 424 | /* 0 */ cp___(o0,0,cp___(o1,1,cp___(o2,2,cp___(o3,3, *textIn)))); ++textIn; o0.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:426:129: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 426 | /* 6 */ cp___(o0,1,cp___(o1,2,cp___(o2,3,cp___(o3,4, cp___(o6,0, *textIn))))); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:428:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 428 | /* 5 */ cp___(o0,2,cp___(o1,3,cp___(o2,4,cp___(o3,5, cp___(o5,0,cp___(o6,1, *textIn)))))); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:430:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 430 | /* 4 */ o0.i2[0] = o1.i2[1] = o2.i2[2] = o3.i2[2] = o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:435:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 435 | /* 3 */ cp___(o0,4,cp___(o1,5, cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:437:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 437 | /* 2 */ o0.i2[1] = o1.i2[2] = o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:441:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 441 | /* 1 */ o0.i2[2] = o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:454:128: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 454 | /* 0 */ cp___(o0,0,cp___(o1,1,cp___(o2,2,cp___(o3,3, *textIn)))); ++textIn; o0.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:456:129: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 456 | /* 6 */ cp___(o0,1,cp___(o1,2,cp___(o2,3,cp___(o3,4, cp___(o6,0, *textIn))))); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:458:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 458 | /* 5 */ cp___(o0,2,cp___(o1,3,cp___(o2,4,cp___(o3,5, cp___(o5,0,cp___(o6,1, *textIn)))))); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:460:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 460 | /* 4 */ o0.i2[0] = o1.i2[1] = o2.i2[2] = o3.i2[2] = o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:465:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 465 | /* 3 */ cp___(o0,4,cp___(o1,5, cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:467:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 467 | /* 2 */ o0.i2[1] = o1.i2[2] = o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:471:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 471 | /* 1 */ o0.i2[2] = o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h: In instantiation of ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String > >; TSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 108 | creator_t creator(unsigner, stringSetLimits(stringSet)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String > >; TSetSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >, Owner > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:354:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 354 | return runJoiner(options, TDbGeo(), TDbGeoSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:347:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 347 | o1.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:357:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 357 | o0.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:361:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | o3.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:365:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 365 | o5.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:369:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 369 | o6.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:395:125: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 395 | /* 6 */ cp___(o6,0, *textIn); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:398:126: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 398 | /* 5 */ cp___(o5,0,cp___(o6,1, *textIn)); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:401:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 401 | /* 4 */ o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:405:127: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 405 | /* 3 */ cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:408:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 408 | /* 2 */ o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:412:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 412 | /* 1 */ o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:424:128: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 424 | /* 0 */ cp___(o0,0,cp___(o1,1,cp___(o2,2,cp___(o3,3, *textIn)))); ++textIn; o0.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:426:129: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 426 | /* 6 */ cp___(o0,1,cp___(o1,2,cp___(o2,3,cp___(o3,4, cp___(o6,0, *textIn))))); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:428:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 428 | /* 5 */ cp___(o0,2,cp___(o1,3,cp___(o2,4,cp___(o3,5, cp___(o5,0,cp___(o6,1, *textIn)))))); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:430:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 430 | /* 4 */ o0.i2[0] = o1.i2[1] = o2.i2[2] = o3.i2[2] = o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:435:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 435 | /* 3 */ cp___(o0,4,cp___(o1,5, cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:437:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 437 | /* 2 */ o0.i2[1] = o1.i2[2] = o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:441:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 441 | /* 1 */ o0.i2[2] = o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:454:128: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 454 | /* 0 */ cp___(o0,0,cp___(o1,1,cp___(o2,2,cp___(o3,3, *textIn)))); ++textIn; o0.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:456:129: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 456 | /* 6 */ cp___(o0,1,cp___(o1,2,cp___(o2,3,cp___(o3,4, cp___(o6,0, *textIn))))); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:458:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 458 | /* 5 */ cp___(o0,2,cp___(o1,3,cp___(o2,4,cp___(o3,5, cp___(o5,0,cp___(o6,1, *textIn)))))); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:460:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 460 | /* 4 */ o0.i2[0] = o1.i2[1] = o2.i2[2] = o3.i2[2] = o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:465:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 465 | /* 3 */ cp___(o0,4,cp___(o1,5, cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:467:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 467 | /* 2 */ o0.i2[1] = o1.i2[2] = o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:471:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 471 | /* 1 */ o0.i2[2] = o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h: In instantiation of ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String > >; TSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 108 | creator_t creator(unsigner, stringSetLimits(stringSet)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String > >; TSetSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >, Owner > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:366:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 366 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:347:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 347 | o1.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:357:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 357 | o0.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:361:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | o3.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:365:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 365 | o5.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:369:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 369 | o6.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:395:125: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 395 | /* 6 */ cp___(o6,0, *textIn); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:398:126: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 398 | /* 5 */ cp___(o5,0,cp___(o6,1, *textIn)); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:401:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 401 | /* 4 */ o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:405:127: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 405 | /* 3 */ cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:408:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 408 | /* 2 */ o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:412:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 412 | /* 1 */ o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:424:128: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 424 | /* 0 */ cp___(o0,0,cp___(o1,1,cp___(o2,2,cp___(o3,3, *textIn)))); ++textIn; o0.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:426:129: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 426 | /* 6 */ cp___(o0,1,cp___(o1,2,cp___(o2,3,cp___(o3,4, cp___(o6,0, *textIn))))); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:428:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 428 | /* 5 */ cp___(o0,2,cp___(o1,3,cp___(o2,4,cp___(o3,5, cp___(o5,0,cp___(o6,1, *textIn)))))); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:430:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 430 | /* 4 */ o0.i2[0] = o1.i2[1] = o2.i2[2] = o3.i2[2] = o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:435:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 435 | /* 3 */ cp___(o0,4,cp___(o1,5, cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:437:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 437 | /* 2 */ o0.i2[1] = o1.i2[2] = o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:441:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 441 | /* 1 */ o0.i2[2] = o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:454:128: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 454 | /* 0 */ cp___(o0,0,cp___(o1,1,cp___(o2,2,cp___(o3,3, *textIn)))); ++textIn; o0.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:456:129: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 456 | /* 6 */ cp___(o0,1,cp___(o1,2,cp___(o2,3,cp___(o3,4, cp___(o6,0, *textIn))))); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:458:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 458 | /* 5 */ cp___(o0,2,cp___(o1,3,cp___(o2,4,cp___(o3,5, cp___(o5,0,cp___(o6,1, *textIn)))))); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:460:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 460 | /* 4 */ o0.i2[0] = o1.i2[1] = o2.i2[2] = o3.i2[2] = o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:465:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 465 | /* 3 */ cp___(o0,4,cp___(o1,5, cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:467:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 467 | /* 2 */ o0.i2[1] = o1.i2[2] = o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:471:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 471 | /* 1 */ o0.i2[2] = o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1444:21: required from ‘void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1444 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1465:31: required from ‘void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1465 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:849:31: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String, seqan::Alloc > >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 849 | arrayConstructMove(old_array, old_array + start, seq_array); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: required from ‘typename seqan::Size >::Type seqan::_clearSpace(String&, TSize, TPosition, TPosition, Tag) [with TValue = SimpleType; TSpec = Alloc >; TSize = long unsigned int; TPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1014 | return ClearSpaceStringBase_ >::_clearSpace_(me, size, pos_begin, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1367:67: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = StringSet, Alloc > >, Owner > >; TValue = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:461:16: required from ‘bool _parseText(DbParser&, TReader&) [with TDb = Db, seqan::Alloc > >, seqan::Owner > >, void>; TSpec = void; TReader = seqan::RecordReader, seqan::SinglePass >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 461 | appendValue(parser.db.text, parser._text); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:394:50: required from ‘bool parseLine(DbParser&, TReader&) [with TDb = Db, seqan::Alloc > >, seqan::Owner > >, void>; TSpec = void; TReader = seqan::RecordReader, seqan::SinglePass >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 394 | return _parseId(parser, reader) && _parseText(parser, reader); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:534:23: required from ‘bool load(Db&, const TFileName&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = void; TFileName = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 534 | if (!parseLine(parser, reader)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:231:14: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Nothing; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 231 | if (!load(db, options.databaseFile)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:309:29: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 309 | return runJoiner(options, TDbDna(), Nothing(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1589:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1589 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::setHost(PairIncrementer_&, const TLimits2&) [with TPair = Pair >; TLimits = String >; TLimits2 = String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:382:10: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 382 | setHost(p, limits); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Alloc > >; TSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 108 | creator_t creator(unsigner, stringSetLimits(stringSet)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc > >; TSetSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:1032:16: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1032 | me.pos = TPair(0, 0); | ~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::pop(Pipe&, TValue&) [with TInput = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >, Skew7>; TSpec = Counter; TValue = Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_separator7.h:62:7: required from ‘void seqan::_skew7SeparateSlices(TInput&, const TFunctor&, TOut1&, TOut2&, TOut4&) [with TInput = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >, Skew7>, Counter>; TFunctor = _skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > >; TOut1 = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut2 = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut4 = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 62 | pop(in, i); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:386:26: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 386 | _skew7SeparateSlices( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^ 387 | renamer, func_slice, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~ 388 | names_S1, names_S2, names_S4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Alloc > >; TSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 108 | creator_t creator(unsigner, stringSetLimits(stringSet)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc > >; TSetSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:619:14: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 619 | Ref_ = *me; | ~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:218:12: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Alloc > >; TSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 218 | struct Pipe< TInput, Multi > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc > >; TSetSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::setHost(PairIncrementer_&, const TLimits2&) [with TPair = Pair >; TLimits = String >; TLimits2 = String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:382:10: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 382 | setHost(p, limits); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Alloc > >; TSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 108 | creator_t creator(unsigner, stringSetLimits(stringSet)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc > >; TSetSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:332:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 332 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:1032:16: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1032 | me.pos = TPair(0, 0); | ~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:218:12: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Alloc > >; TSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 218 | struct Pipe< TInput, Multi > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc > >; TSetSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:332:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 332 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:218:12: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String > >; TSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 218 | struct Pipe< TInput, Multi > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String > >; TSetSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:354:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 354 | return runJoiner(options, TDbGeo(), TDbGeoSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:218:12: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String > >; TSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 218 | struct Pipe< TInput, Multi > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String > >; TSetSpec = Owner >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:366:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 366 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveBackwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1641:30: required from ‘void seqan::arrayMoveBackward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1641 | _arrayMoveBackwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1213:26: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = SimpleType*; TSource1 = SimpleType*; TSource2 = SimpleType*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1213 | arrayMoveBackward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1660:14: required from ‘void seqan::_arrayClearSpacePointer(TValue*, size_t, size_t, size_t, const True&) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1660 | arrayMove(array_begin + keep_from, array_begin + array_length, array_begin + move_to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1681:28: required from ‘void seqan::arrayClearSpace(TValue*, size_t, size_t, size_t) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1681 | _arrayClearSpacePointer(array_begin, array_length, keep_from, move_to, typename IsSimple::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:856:28: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String, seqan::Alloc > >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 856 | arrayClearSpace(seq_array + start, old_length - start, removed_size, size); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = StringSet, Alloc > >, Owner > >; TValue = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:461:16: required from ‘bool _parseText(DbParser&, TReader&) [with TDb = Db, seqan::Alloc > >, seqan::Owner > >, void>; TSpec = void; TReader = seqan::RecordReader, seqan::SinglePass >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 461 | appendValue(parser.db.text, parser._text); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:394:50: required from ‘bool parseLine(DbParser&, TReader&) [with TDb = Db, seqan::Alloc > >, seqan::Owner > >, void>; TSpec = void; TReader = seqan::RecordReader, seqan::SinglePass >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 394 | return _parseId(parser, reader) && _parseText(parser, reader); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/db.h:534:23: required from ‘bool load(Db&, const TFileName&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = void; TFileName = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 534 | if (!parseLine(parser, reader)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:231:14: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Nothing; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 231 | if (!load(db, options.databaseFile)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:309:29: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 309 | return runJoiner(options, TDbDna(), Nothing(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1621:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1621 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc >; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc >; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:131:16: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:735:42: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Db, Alloc > >, Owner > >, void>; TValue2 = Db, Alloc > >, Owner > >, void>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 735 | me.data_value = _holderAllocateObject(me, value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Db, Alloc > >, Owner > >, void>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Db, Alloc > >, Owner > >, void>; typename Reference > >::Type = Db, Alloc > >, Owner > >, void>&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:778:40: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Nothing; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 778 | TDbSSize dbQuerySize = length(value(dbFinder.query).text); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Nothing; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:309:29: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 309 | return runJoiner(options, TDbDna(), Nothing(), Online()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:65: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h: In instantiation of ‘seqan::Pipe >, TPair, TLimitsString> >& seqan::Pipe >, TPair, TLimitsString> >::operator++() [with TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPair = seqan::Pair >; TLimitsString = seqan::String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:317:20: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 317 | sorter << sampler; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:599:20: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 599 | tmp.i1 = localPos; | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, unsigned int>, unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:324:41: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 324 | TNames_Sliced names_sliced; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::pop(TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:925:24: required from ‘void seqan::Pool::pop(TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 925 | reader->pop(Ref_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1159:15: required from ‘void seqan::pop(Pool&, TValue&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1159 | me.pop(Ref_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_separator7.h:62:7: required from ‘void seqan::_skew7SeparateSlices(TInput&, const TFunctor&, TOut1&, TOut2&, TOut4&) [with TInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TFunctor = _skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > >; TOut1 = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut2 = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut4 = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 62 | pop(in, i); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:342:25: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 342 | _skew7SeparateSlices( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^ 343 | names_sliced, func_slice, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~ 344 | names_S1, names_S2, names_S4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:926:18: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 926 | Ref_ = *cur; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 5, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:414:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 414 | if (r >= 6) push(out6, o6); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 5, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 4, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:415:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 415 | if (r >= 5) push(out5, o5); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 4, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:432:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 432 | if (r >= 3) push(out3, o3); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:443:9: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 443 | push(out0, o0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:243:12: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 243 | struct Pipe< TInput, Skew7 > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >, seqan::Tag >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T = seqan::SimpleType; unsigned int SIZE = 6; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:404:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 404 | _copy(inValue[0], *in.in1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:385:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 385 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: ‘struct seqan::Pair >’ declared here 95 | struct Pair | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >, seqan::Tag >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T = seqan::SimpleType; unsigned int SIZE = 4; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:422:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 422 | _copy(inValue[5], *in.in3); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:385:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 385 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: ‘struct seqan::Pair >’ declared here 95 | struct Pair | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >, seqan::Tag >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T = seqan::SimpleType; unsigned int SIZE = 5; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:431:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 431 | _copy(inValue[6], *in.in4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:385:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 385 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: ‘struct seqan::Pair >’ declared here 95 | struct Pair | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h: In instantiation of ‘seqan::Pipe >, TPair, TLimitsString> >& seqan::Pipe >, TPair, TLimitsString> >::operator++() [with TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPair = seqan::Pair >; TLimitsString = seqan::String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:317:20: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 317 | sorter << sampler; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:332:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 332 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:599:20: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 599 | tmp.i1 = localPos; | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 5, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:414:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 414 | if (r >= 6) push(out6, o6); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:332:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 332 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 5, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 4, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:415:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 415 | if (r >= 5) push(out5, o5); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:332:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 332 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 4, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:432:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 432 | if (r >= 3) push(out3, o3); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:332:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 332 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:443:9: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 443 | push(out0, o0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:332:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 332 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >, seqan::Tag >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T = seqan::SimpleType; unsigned int SIZE = 6; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:404:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 404 | _copy(inValue[0], *in.in1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:332:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 332 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:385:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 385 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: ‘struct seqan::Pair >’ declared here 97 | struct Pair > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >, seqan::Tag >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T = seqan::SimpleType; unsigned int SIZE = 4; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:422:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 422 | _copy(inValue[5], *in.in3); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:332:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 332 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:385:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 385 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: ‘struct seqan::Pair >’ declared here 97 | struct Pair > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >, seqan::Tag >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T = seqan::SimpleType; unsigned int SIZE = 5; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:431:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 431 | _copy(inValue[6], *in.in4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:332:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 332 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:385:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 385 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: ‘struct seqan::Pair >’ declared here 97 | struct Pair > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h: In instantiation of ‘seqan::Pipe, TPair, TLimitsString> >& seqan::Pipe, TPair, TLimitsString> >::operator++() [with TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; unsigned int m = 7; TPack = seqan::Tag; TPair = seqan::Pair >; TLimitsString = seqan::String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >; TSource = Pipe > >, Source<> >, Caster >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >; TSource = Pipe > >, Source<> >, Caster >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >; TSource = Pipe > >, Source<> >, Caster >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:317:20: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 317 | sorter << sampler; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:354:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 354 | return runJoiner(options, TDbGeo(), TDbGeoSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:497:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 497 | tmpRef->i1 = localPos; | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:414:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 414 | if (r >= 6) push(out6, o6); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:354:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 354 | return runJoiner(options, TDbGeo(), TDbGeoSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:415:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 415 | if (r >= 5) push(out5, o5); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:354:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 354 | return runJoiner(options, TDbGeo(), TDbGeoSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:432:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 432 | if (r >= 3) push(out3, o3); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:354:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 354 | return runJoiner(options, TDbGeo(), TDbGeoSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:443:9: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 443 | push(out0, o0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:354:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 354 | return runJoiner(options, TDbGeo(), TDbGeoSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:404:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 404 | _copy(inValue[0], *in.in1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:354:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 354 | return runJoiner(options, TDbGeo(), TDbGeoSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:376:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 376 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: ‘struct seqan::Pair >’ declared here 95 | struct Pair | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:422:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 422 | _copy(inValue[5], *in.in3); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:354:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 354 | return runJoiner(options, TDbGeo(), TDbGeoSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:376:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 376 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: ‘struct seqan::Pair >’ declared here 95 | struct Pair | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:431:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 431 | _copy(inValue[6], *in.in4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:354:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 354 | return runJoiner(options, TDbGeo(), TDbGeoSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:376:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 376 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: ‘struct seqan::Pair >’ declared here 95 | struct Pair | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h: In instantiation of ‘seqan::Pipe, TPair, TLimitsString> >& seqan::Pipe, TPair, TLimitsString> >::operator++() [with TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; unsigned int m = 7; TPack = seqan::Tag; TPair = seqan::Pair >; TLimitsString = seqan::String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >; TSource = Pipe > >, Source<> >, Caster >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >; TSource = Pipe > >, Source<> >, Caster >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >; TSource = Pipe > >, Source<> >, Caster >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:317:20: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 317 | sorter << sampler; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:366:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 366 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:497:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 497 | tmpRef->i1 = localPos; | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:414:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 414 | if (r >= 6) push(out6, o6); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:366:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 366 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:415:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 415 | if (r >= 5) push(out5, o5); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:366:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 366 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:432:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 432 | if (r >= 3) push(out3, o3); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:366:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 366 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:443:9: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 443 | push(out0, o0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:366:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 366 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:404:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 404 | _copy(inValue[0], *in.in1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:366:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 366 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:376:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 376 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: ‘struct seqan::Pair >’ declared here 97 | struct Pair > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:422:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 422 | _copy(inValue[5], *in.in3); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:366:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 366 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:376:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 376 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: ‘struct seqan::Pair >’ declared here 97 | struct Pair > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:431:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 431 | _copy(inValue[6], *in.in4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:366:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 366 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:376:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 376 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: ‘struct seqan::Pair >’ declared here 97 | struct Pair > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:64: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘const typename seqan::Value > >::Type& seqan::Pipe >::operator*() [with TInput = seqan::Pool >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NCompMulti >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>; typename seqan::Value > >::Type = seqan::Pair >, unsigned int, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:148:22: required from ‘const typename seqan::Value > >::Type seqan::Pipe >::operator*() const [with TInput = seqan::Pipe >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int> > >; TFunctor = seqan::_skew7GlobalSlicedMulti >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > >; typename seqan::Value > >::Type = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 148 | return F(*in); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:24: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 328 | names_sliced << slicedPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:97:8: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:134:20: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 134 | tmp.i1 = getValueI1(*in); | ~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NCompMulti >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int> > >; TFunctor = seqan::_skew7GlobalSlicedMulti >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 153 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | names_sliced << slicedPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:143:22: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >& seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 143 | last = *in; | ~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple, 7, seqan::BitPacked<> >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_separator7.h:64:9: required from ‘void seqan::_skew7SeparateSlices(TInput&, const TFunctor&, TOut1&, TOut2&, TOut4&) [with TInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TFunctor = _skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > >; TOut1 = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut2 = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut4 = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 64 | push(out4, i); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:342:25: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 342 | _skew7SeparateSlices( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^ 343 | names_sliced, func_slice, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~ 344 | names_S1, names_S2, names_S4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, unsigned int>, unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_separator7.h:64:9: required from ‘void seqan::_skew7SeparateSlices(TInput&, const TFunctor&, TOut1&, TOut2&, TOut4&) [with TInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TFunctor = _skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > >; TOut1 = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut2 = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut4 = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 64 | push(out4, i); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:342:25: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 342 | _skew7SeparateSlices( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^ 343 | names_sliced, func_slice, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~ 344 | names_S1, names_S2, names_S4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TSpec = MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:416:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 416 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TSpec = MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:416:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 416 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘const typename seqan::Value > >::Type& seqan::Pipe >::operator*() [with TInput = seqan::Pool >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NCompMulti >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>; typename seqan::Value > >::Type = seqan::Pair >, unsigned int, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:148:22: required from ‘const typename seqan::Value > >::Type seqan::Pipe >::operator*() const [with TInput = seqan::Pipe >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int> > >; TFunctor = seqan::_skew7GlobalSlicedMulti >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > >; typename seqan::Value > >::Type = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 148 | return F(*in); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:24: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | names_sliced << slicedPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:332:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 332 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:134:20: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 134 | tmp.i1 = getValueI1(*in); | ~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NCompMulti >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int> > >; TFunctor = seqan::_skew7GlobalSlicedMulti >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 153 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 328 | names_sliced << slicedPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:332:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 332 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:143:22: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >& seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 143 | last = *in; | ~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple, 7, seqan::BitPacked<> >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TSpec = MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:416:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 416 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:332:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 332 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TSpec = MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:416:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 416 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:332:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 332 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘const typename seqan::Value > >::Type& seqan::Pipe >::operator*() [with TInput = seqan::Pool >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NCompMulti >, seqan::Tuple >, seqan::Tag >, int>; typename seqan::Value > >::Type = seqan::Pair >, unsigned int, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:148:22: required from ‘const typename seqan::Value > >::Type seqan::Pipe >::operator*() const [with TInput = seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >; TFunctor = seqan::_skew7GlobalSlicedMulti >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > >; typename seqan::Value > >::Type = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 148 | return F(*in); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:24: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | names_sliced << slicedPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:354:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 354 | return runJoiner(options, TDbGeo(), TDbGeoSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:134:20: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 134 | tmp.i1 = getValueI1(*in); | ~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NCompMulti >, seqan::Tuple >, seqan::Tag >, int>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >; TFunctor = seqan::_skew7GlobalSlicedMulti >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 153 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | names_sliced << slicedPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:354:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 354 | return runJoiner(options, TDbGeo(), TDbGeoSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:143:22: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple >, seqan::Tag >& seqan::Pair >, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 143 | last = *in; | ~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:416:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 416 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:354:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 354 | return runJoiner(options, TDbGeo(), TDbGeoSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:416:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 416 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:354:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 354 | return runJoiner(options, TDbGeo(), TDbGeoSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘const typename seqan::Value > >::Type& seqan::Pipe >::operator*() [with TInput = seqan::Pool >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NCompMulti >, seqan::Tuple >, seqan::Tag >, int>; typename seqan::Value > >::Type = seqan::Pair >, unsigned int, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:148:22: required from ‘const typename seqan::Value > >::Type seqan::Pipe >::operator*() const [with TInput = seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >; TFunctor = seqan::_skew7GlobalSlicedMulti >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > >; typename seqan::Value > >::Type = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 148 | return F(*in); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:24: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | names_sliced << slicedPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:366:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 366 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:134:20: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 134 | tmp.i1 = getValueI1(*in); | ~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NCompMulti >, seqan::Tuple >, seqan::Tag >, int>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >; TFunctor = seqan::_skew7GlobalSlicedMulti >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 153 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 328 | names_sliced << slicedPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:366:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 366 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:143:22: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple >, seqan::Tag >& seqan::Pair >, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 143 | last = *in; | ~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:416:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 416 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:366:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 366 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:416:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 416 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:366:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 366 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:317:20: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >& seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple, 7, seqan::BitPacked<> >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘bool seqan::control(Pipe >&, const ControlBeginRead&) [with TInput = Pool >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >; TCompare = _skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int>; ControlBeginRead = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:651:23: required from ‘bool seqan::control(Pipe&, const TCommand&) [with TInput = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >; TSpec = Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > >; TCommand = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 651 | return control(me.in, command); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >; TSpec = Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:164:21: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >& seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 164 | me.last = *me.in; | ~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple, 7, seqan::BitPacked<> >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:165:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 165 | me.tmp.i1 = me.last.i1; | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Pair >; TConfig = MapperConfigSize >, unsigned int>, unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:401:106: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 401 | /* 4 */ o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, unsigned int>, unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:341:41: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 341 | TNames_Sliced names_sliced(map_sliced); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NComp >, seqan::Tag >, int>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:345:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 345 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:143:22: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 143 | last = *in; | ~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, unsigned int>, unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:352:45: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 352 | TNames_Linear_Unique names_linear(map_linear); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 2, int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:161:29: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 161 | if (r >= 6) push(out6, o6); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:162:29: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 162 | if (r >= 5) push(out5, o5); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:179:29: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 179 | if (r >= 3) push(out3, o3); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 3, int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:190:17: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 190 | push(out0, o0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:173:12: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 173 | struct Pipe< TInput, Skew3 > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:317:20: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:332:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 332 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >& seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple, 7, seqan::BitPacked<> >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘bool seqan::control(Pipe >&, const ControlBeginRead&) [with TInput = Pool >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >; TCompare = _skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int>; ControlBeginRead = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:651:23: required from ‘bool seqan::control(Pipe&, const TCommand&) [with TInput = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >; TSpec = Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > >; TCommand = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 651 | return control(me.in, command); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >; TSpec = Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:332:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 332 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:164:21: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >& seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 164 | me.last = *me.in; | ~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple, 7, seqan::BitPacked<> >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:165:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 165 | me.tmp.i1 = me.last.i1; | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Pair >, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >; TSource = Pipe > >, Source<> >, Caster >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >; TSource = Pipe > >, Source<> >, Caster >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >; TSource = Pipe > >, Source<> >, Caster >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:317:20: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:354:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 354 | return runJoiner(options, TDbGeo(), TDbGeoSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple >, seqan::Tag >& seqan::Pair >, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘bool seqan::control(Pipe >&, const ControlBeginRead&) [with TInput = Pool >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >; TCompare = _skew7NCompMulti >, Tuple >, Tag >, int>; ControlBeginRead = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:651:23: required from ‘bool seqan::control(Pipe&, const TCommand&) [with TInput = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >; TSpec = Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > >; TCommand = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 651 | return control(me.in, command); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >; TSpec = Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:354:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 354 | return runJoiner(options, TDbGeo(), TDbGeoSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:164:21: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple >, seqan::Tag >& seqan::Pair >, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 164 | me.last = *me.in; | ~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:165:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 165 | me.tmp.i1 = me.last.i1; | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Pair >, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >; TSource = Pipe > >, Source<> >, Caster >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >; TSource = Pipe > >, Source<> >, Caster >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >; TSource = Pipe > >, Source<> >, Caster >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:317:20: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:366:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 366 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple >, seqan::Tag >& seqan::Pair >, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘bool seqan::control(Pipe >&, const ControlBeginRead&) [with TInput = Pool >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >; TCompare = _skew7NCompMulti >, Tuple >, Tag >, int>; ControlBeginRead = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:651:23: required from ‘bool seqan::control(Pipe&, const TCommand&) [with TInput = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >; TSpec = Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > >; TCommand = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 651 | return control(me.in, command); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >; TSpec = Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tuple >, Tag >, SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, unsigned int, Tag >, String >, unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:366:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 366 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:164:21: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple >, seqan::Tag >& seqan::Pair >, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 164 | me.last = *me.in; | ~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:165:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 165 | me.tmp.i1 = me.last.i1; | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::setHost(PairDecrementer_&, const TLimits2&) [with TPair = Pair >; TLimits = String >; unsigned int m = 7; TLimits2 = String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:537:11: required from ‘void seqan::Pipe >, TPair, TLimitsString> >::prepare() [with TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPair = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 537 | setHost(localPos, limits); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:613:19: required from ‘bool seqan::control(Pipe, TPair, TLimitsString> >&, const ControlBeginRead&) [with TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; unsigned int m = 7; TPack = BitPacked<>; TPair = Pair >; TLimitsString = String >; ControlBeginRead = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 613 | me.prepare(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, Pair >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:1119:16: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1119 | me.pos = TPair(0, 0); | ~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h: In instantiation of ‘void seqan::Pipe >, TPair, TLimitsString> >::fill() [with TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPair = seqan::Pair >; TLimitsString = seqan::String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:544:13: required from ‘void seqan::Pipe >, TPair, TLimitsString> >::prepare() [with TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPair = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 544 | fill(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:613:19: required from ‘bool seqan::control(Pipe, TPair, TLimitsString> >&, const ControlBeginRead&) [with TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; unsigned int m = 7; TPack = BitPacked<>; TPair = Pair >; TLimitsString = String >; ControlBeginRead = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 613 | me.prepare(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, Pair >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:557:32: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 557 | tmp.i1 = localPos; | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘bool seqan::control(Pipe >&, const ControlBeginRead&) [with TInput = Pool >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >; TCompare = _skew7NComp >, Tag >, int>; ControlBeginRead = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pool >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >; TSpec = Namer<_skew7NComp >, Tag >, int> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:345:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 345 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:164:21: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 164 | me.last = *me.in; | ~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h: In instantiation of ‘TResult seqan::_skew7NComp::operator()(const TValue&, const TValue&) const [with TValue = seqan::Pair >, seqan::Tag >; TResult = int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:141:30: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NComp >, seqan::Tag >, int>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 141 | if (!eof(in) && C(last, *in) != 0) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:345:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 345 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:74:43: warning: taking address of packed member of ‘seqan::Tuple >’ may result in an unaligned pointer value [-Waddress-of-packed-member] 74 | const TStoredValue *sa = a.i2.i; | ~~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: taking address of packed member of ‘seqan::Tuple >’ may result in an unaligned pointer value [-Waddress-of-packed-member] 75 | const TStoredValue *sb = b.i2.i; | ~~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = MapperSpec, Tuple >, Tag >, unsigned int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:163:29: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 163 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = MapperSpec, Tuple >, Tag >, unsigned int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:163:29: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 163 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::setHost(PairDecrementer_&, const TLimits2&) [with TPair = Pair >; TLimits = String >; unsigned int m = 7; TLimits2 = String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:537:11: required from ‘void seqan::Pipe >, TPair, TLimitsString> >::prepare() [with TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPair = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 537 | setHost(localPos, limits); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:613:19: required from ‘bool seqan::control(Pipe, TPair, TLimitsString> >&, const ControlBeginRead&) [with TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; unsigned int m = 7; TPack = BitPacked<>; TPair = Pair >; TLimitsString = String >; ControlBeginRead = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 613 | me.prepare(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, Pair >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:332:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 332 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:1119:16: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1119 | me.pos = TPair(0, 0); | ~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h: In instantiation of ‘void seqan::Pipe >, TPair, TLimitsString> >::fill() [with TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPair = seqan::Pair >; TLimitsString = seqan::String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:544:13: required from ‘void seqan::Pipe >, TPair, TLimitsString> >::prepare() [with TInput = seqan::Pipe, seqan::Alloc > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPair = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 544 | fill(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:613:19: required from ‘bool seqan::control(Pipe, TPair, TLimitsString> >&, const ControlBeginRead&) [with TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; unsigned int m = 7; TPack = BitPacked<>; TPair = Pair >; TLimitsString = String >; ControlBeginRead = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 613 | me.prepare(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, Pair >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, unsigned int, File > > >; TSource = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:332:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 332 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:557:32: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 557 | tmp.i1 = localPos; | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h: In instantiation of ‘void seqan::Pipe, TPair, TLimitsString> >::fill() [with TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; unsigned int m = 7; TPack = seqan::Tag; TPair = seqan::Pair >; TLimitsString = seqan::String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:426:13: required from ‘void seqan::Pipe, TPair, TLimitsString> >::prepare() [with TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; unsigned int m = 7; TPack = seqan::Tag; TPair = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 426 | fill(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:613:19: required from ‘bool seqan::control(Pipe, TPair, TLimitsString> >&, const ControlBeginRead&) [with TInput = Pipe > >, Source<> >, Caster >; unsigned int m = 7; TPack = Tag; TPair = Pair >; TLimitsString = String >; ControlBeginRead = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 613 | me.prepare(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, Pair >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >; TSource = Pipe > >, Source<> >, Caster >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >; TSource = Pipe > >, Source<> >, Caster >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:354:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 354 | return runJoiner(options, TDbGeo(), TDbGeoSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:438:24: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 438 | tmpRef->i1 = localPos; | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h: In instantiation of ‘void seqan::Pipe, TPair, TLimitsString> >::fill() [with TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; unsigned int m = 7; TPack = seqan::Tag; TPair = seqan::Pair >; TLimitsString = seqan::String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:426:13: required from ‘void seqan::Pipe, TPair, TLimitsString> >::prepare() [with TInput = seqan::Pipe > >, seqan::Source<> >, seqan::Caster >; unsigned int m = 7; TPack = seqan::Tag; TPair = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 426 | fill(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:613:19: required from ‘bool seqan::control(Pipe, TPair, TLimitsString> >&, const ControlBeginRead&) [with TInput = Pipe > >, Source<> >, Caster >; unsigned int m = 7; TPack = Tag; TPair = Pair >; TLimitsString = String >; ControlBeginRead = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 613 | me.prepare(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe > >, Source<> >, Caster >; TSpec = Multi >, Pair >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >; TSource = Pipe > >, Source<> >, Caster >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, unsigned int, File > > >; TSource = Pipe > >, Source<> >, Caster >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:366:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 366 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:438:24: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 438 | tmpRef->i1 = localPos; | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned char; unsigned int BITSIZE1 = 24; unsigned int BITSIZE2 = 8]’ 112 | inline Pair(Pair const & _p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Pair >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, unsigned int, File > > >; TSource = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >, Sampler<7, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, unsigned int, File > > >; TSource = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >, Sampler<7, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, unsigned int, File > > >; TSource = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >, Sampler<7, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:335:20: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_bit_compressed.h:112:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Pair >; TConfig = MapperConfigSize<_skew7NMapLinear >, unsigned int>, unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:148:104: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 148 | /* 4 */ o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn).i2; ++nameIn; o4.i1 = p--; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, unsigned int>, unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:247:41: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 247 | TNames_Sliced names_sliced(map_sliced); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 218 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:376:34: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >; TCompare = seqan::_skew3NComp >, seqan::Tag >, int>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:251:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 251 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 218 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:376:34: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:143:22: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 143 | last = *in; | ~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, unsigned int>, unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:259:45: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 259 | TNames_Linear_Unique names_linear(map_linear); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 218 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:376:34: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple, Tag >; TSpec = SorterSpec, Tuple, Tag >, int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender3.h:123:17: required from ‘bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 123 | push(out0, o0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:269:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 269 | _skew3Extend(textIn, names_linear, sortedS0, sortedS12); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 218 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:376:34: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:59: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h: In instantiation of ‘const typename seqan::StoredTupleValue_::Type& seqan::Tuple >::operator[](TPos) const [with TPos = int; TValue = unsigned int; unsigned int SIZE = 6; typename seqan::StoredTupleValue_::Type = unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:124:27: required from ‘bool seqan::CompareSkewDCStream::operator()(const seqan::SkewDCStream&, const seqan::SkewDCStream&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 124 | if (a.i.i3[i] < b.i.i3[i]) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:307:23: required from ‘void seqan::Pipe, seqan::Merger7>::insertStream(unsigned int) [with TInput0 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, unsigned int, seqan::File > > > >; TInput3 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, unsigned int, seqan::File > > > >; TInput5 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, unsigned int, seqan::File > > > >; TInput6 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, unsigned int, seqan::File > > > >; TInput124 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 307 | if (!streamGreater(inValue[stream],inValue[rank[right]])) break; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:319:4: required from ‘seqan::Pipe, seqan::Merger7>& seqan::Pipe, seqan::Merger7>::operator++() [with TInput0 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, unsigned int, seqan::File > > > >; TInput3 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, unsigned int, seqan::File > > > >; TInput5 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, unsigned int, seqan::File > > > >; TInput6 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, unsigned int, seqan::File > > > >; TInput124 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 319 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:440:13: required from ‘seqan::Pipe& seqan::Pipe::operator++() [with TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 440 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_counter.h:105:13: required from ‘seqan::Pipe& seqan::Pipe::operator++() [with TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >, seqan::Skew7>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 105 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:620:9: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: returning reference to temporary [-Wreturn-local-addr] 171 | return i[k]; | ~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:446:6: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 446 | ++in.in5; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:446:6: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 446 | ++in.in5; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:332:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 332 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:446:6: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 446 | ++in.in5; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:354:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 354 | return runJoiner(options, TDbGeo(), TDbGeoSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:446:6: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 446 | ++in.in5; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:366:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 366 | return runJoiner(options, TDbGeo(), TDbGeoSaSmall(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, unsigned int>, unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, unsigned int>, unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘bool seqan::control(Pipe >&, const ControlBeginRead&) [with TInput = Pool >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >; TCompare = _skew3NComp >, Tag >, int>; ControlBeginRead = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pool >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >; TSpec = Namer<_skew3NComp >, Tag >, int> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:251:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 251 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:164:21: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 164 | me.last = *me.in; | ~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h: In instantiation of ‘TResult seqan::_skew3NComp::operator()(const TValue&, const TValue&) const [with TValue = seqan::Pair >, seqan::Tag >; TResult = int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:141:30: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >; TCompare = seqan::_skew3NComp >, seqan::Tag >, int>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 141 | if (!eof(in) && C(last, *in) != 0) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:251:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 251 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:74:43: warning: taking address of packed member of ‘seqan::Tuple >’ may result in an unaligned pointer value [-Waddress-of-packed-member] 74 | const TStoredValue *sa = a.i2.i; | ~~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: taking address of packed member of ‘seqan::Tuple >’ may result in an unaligned pointer value [-Waddress-of-packed-member] 75 | const TStoredValue *sb = b.i2.i; | ~~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple, Tag >; TSpec = MapperSpec, Tuple, Tag >, unsigned int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender3.h:101:17: required from ‘bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 101 | push(out12, o2); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:269:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 269 | _skew3Extend(textIn, names_linear, sortedS0, sortedS12); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple, Tag >; TSpec = MapperSpec, Tuple, Tag >, unsigned int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender3.h:101:17: required from ‘bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 101 | push(out12, o2); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:269:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Filter >, unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 269 | _skew3Extend(textIn, names_linear, sortedS0, sortedS12); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Pair >; TConfig = MapperConfigSize<_skew7NMapSliced >, unsigned int>, unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >; TFunctor = seqan::filterI2 >, unsigned int>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 153 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_lss.h:415:29: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Pair >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, unsigned int, File > > >; TSource = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >, Sampler<3> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, unsigned int, File > > >; TSource = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >, Sampler<3> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, unsigned int, File > > >; TSource = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >, Sampler<3> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:241:20: [ skipping 11 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Pair >; TConfig = MapperConfigSize<_skew3NMapLinear >, unsigned int>, unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender3.h:86:38: required from ‘bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 86 | o2.i2[0] = (*nameIn).i2; ++nameIn; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:269:29: [ skipping 11 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, unsigned int>, unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, unsigned int>, unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended, Tuple >, Tag >, unsigned int>, unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer, seqan::Tuple >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:301:6: required from ‘void seqan::Pipe, seqan::Merger7>::insertStream(unsigned int) [with TInput0 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, unsigned int, seqan::File > > > >; TInput3 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, unsigned int, seqan::File > > > >; TInput5 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, unsigned int, seqan::File > > > >; TInput6 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, unsigned int, seqan::File > > > >; TInput124 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 301 | ++in.in5; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:319:4: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Pair >; TConfig = MapperConfigSize<_skew3NMapSliced >, unsigned int>, unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, unsigned int>, unsigned int, File > > >; TSource = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: [ skipping 13 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = unsigned int; T2 = unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple, Tag >; TConfig = MapperConfigSize<_skew3NMapExtended, Tuple, Tag >, unsigned int>, unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer, seqan::Tuple, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger3.h:111:17: required from ‘seqan::Pipe, seqan::Merger3>& seqan::Pipe, seqan::Merger3>::operator++() [with TInput0 = seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned int, seqan::File > > > >; TInput12 = seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 111 | ++in.in2; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:329:13: [ skipping 15 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h: In instantiation of ‘const typename seqan::StoredTupleValue_::Type& seqan::Tuple >::operator[](TPos) const [with TPos = unsigned int; TValue = unsigned int; unsigned int SIZE = 6; typename seqan::StoredTupleValue_::Type = unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:191:25: required from ‘TResult seqan::_skew7ExtendComp::operator()(const TValue&, const TValue&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; unsigned int EXT_LENGTH = 3; TResult = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 191 | if (a.i3[i] == b.i3[i]) continue; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:50:21: required from ‘bool seqan::MergeStreamComparer::operator()(const seqan::PageBucket&, const seqan::PageBucket&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; Compare = seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 3, int>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 50 | return C(static_cast(*(a.cur)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 51 | static_cast(*(b.cur))) > 0; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:356:13: required from ‘void seqan::_adjustHeapTowardLeaves(PriorityType&, TValue, TSize, TSize) [with TValue = PageBucketExtended, Tuple >, Tag > >; TLess = MergeStreamComparer, Tuple >, Tag >, _skew7ExtendComp, Tuple >, Tag >, 3, int> >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 356 | if ( less ( element, me.heap[i] ) ) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:335:26: required from ‘void seqan::pop(PriorityType&) [with TValue = PageBucketExtended, Tuple >, Tag > >; TLess = MergeStreamComparer, Tuple >, Tag >, _skew7ExtendComp, Tuple >, Tag >, 3, int> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 335 | _adjustHeapTowardLeaves(me, element, 0, 2 ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18: required from ‘void seqan::Handler, seqan::Tag >::pop() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TPoolSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 311 | ::seqan::pop(pqueue); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24: [ skipping 15 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: returning reference to temporary [-Wreturn-local-addr] 171 | return i[k]; | ~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h: In instantiation of ‘const typename seqan::StoredTupleValue_::Type& seqan::Tuple >::operator[](TPos) const [with TPos = unsigned int; TValue = unsigned int; unsigned int SIZE = 4; typename seqan::StoredTupleValue_::Type = unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:191:25: required from ‘TResult seqan::_skew7ExtendComp::operator()(const TValue&, const TValue&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; unsigned int EXT_LENGTH = 1; TResult = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 191 | if (a.i3[i] == b.i3[i]) continue; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:50:21: required from ‘bool seqan::MergeStreamComparer::operator()(const seqan::PageBucket&, const seqan::PageBucket&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; Compare = seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 1, int>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 50 | return C(static_cast(*(a.cur)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 51 | static_cast(*(b.cur))) > 0; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:356:13: required from ‘void seqan::_adjustHeapTowardLeaves(PriorityType&, TValue, TSize, TSize) [with TValue = PageBucketExtended, Tuple >, Tag > >; TLess = MergeStreamComparer, Tuple >, Tag >, _skew7ExtendComp, Tuple >, Tag >, 1, int> >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 356 | if ( less ( element, me.heap[i] ) ) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:335:26: required from ‘void seqan::pop(PriorityType&) [with TValue = PageBucketExtended, Tuple >, Tag > >; TLess = MergeStreamComparer, Tuple >, Tag >, _skew7ExtendComp, Tuple >, Tag >, 1, int> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 335 | _adjustHeapTowardLeaves(me, element, 0, 2 ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18: required from ‘void seqan::Handler, seqan::Tag >::pop() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TPoolSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 311 | ::seqan::pop(pqueue); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24: [ skipping 15 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: returning reference to temporary [-Wreturn-local-addr] 171 | return i[k]; | ~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h: In instantiation of ‘const typename seqan::StoredTupleValue_::Type& seqan::Tuple >::operator[](TPos) const [with TPos = unsigned int; TValue = unsigned int; unsigned int SIZE = 5; typename seqan::StoredTupleValue_::Type = unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:191:25: required from ‘TResult seqan::_skew7ExtendComp::operator()(const TValue&, const TValue&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; unsigned int EXT_LENGTH = 2; TResult = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 191 | if (a.i3[i] == b.i3[i]) continue; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:50:21: required from ‘bool seqan::MergeStreamComparer::operator()(const seqan::PageBucket&, const seqan::PageBucket&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; Compare = seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 2, int>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 50 | return C(static_cast(*(a.cur)), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 51 | static_cast(*(b.cur))) > 0; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:356:13: required from ‘void seqan::_adjustHeapTowardLeaves(PriorityType&, TValue, TSize, TSize) [with TValue = PageBucketExtended, Tuple >, Tag > >; TLess = MergeStreamComparer, Tuple >, Tag >, _skew7ExtendComp, Tuple >, Tag >, 2, int> >; TSize = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 356 | if ( less ( element, me.heap[i] ) ) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:335:26: required from ‘void seqan::pop(PriorityType&) [with TValue = PageBucketExtended, Tuple >, Tag > >; TLess = MergeStreamComparer, Tuple >, Tag >, _skew7ExtendComp, Tuple >, Tag >, 2, int> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 335 | _adjustHeapTowardLeaves(me, element, 0, 2 ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18: required from ‘void seqan::Handler, seqan::Tag >::pop() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TPoolSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 311 | ::seqan::pop(pqueue); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24: [ skipping 15 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc > >, Owner > >; TSpec = IndexSa >; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/index_sa_stree.h:177:17: required from ‘void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet, Alloc > >, Owner > >; TIndexSpec = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 177 | indexRequire(index, EsaSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_stree.h:265:33: required from ‘seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Preorder]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 265 | _indexRequireTopDownIteration(_index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:597:23: required from ‘void execute(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 597 | TTextIterator textIt(dbFinder.dbIndex.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:284:12: required from ‘int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 284 | execute(joiner); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/join.cpp:320:41: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 320 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: returning reference to temporary [-Wreturn-local-addr] 171 | return i[k]; | ~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h: In function ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, unsigned int>, unsigned int, File > > > >, Filter >, unsigned int> > >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, unsigned int>, unsigned int, File > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:142:117: warning: this statement may fall through [-Wimplicit-fallthrough=] 142 | /* 6 */ cp___(o6,0, *textIn); ++textIn; o6.i1 = p--; | ~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:144:9: note: here 144 | case 5: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:145:118: warning: this statement may fall through [-Wimplicit-fallthrough=] 145 | /* 5 */ cp___(o5,0,cp___(o6,1, *textIn)); ++textIn; o5.i1 = p--; | ~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:147:9: note: here 147 | case 4: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:149:103: warning: this statement may fall through [-Wimplicit-fallthrough=] 149 | cp___(o4,0,cp___(o5,1,cp___(o6,2, *textIn))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:151:9: note: here 151 | case 3: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:152:119: warning: this statement may fall through [-Wimplicit-fallthrough=] 152 | /* 3 */ cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))); ++textIn; o3.i1 = p--; | ~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:154:9: note: here 154 | case 2: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:156:105: warning: this statement may fall through [-Wimplicit-fallthrough=] 156 | cp___(o2,0,cp___(o3,1,cp___(o4,2,cp___(o5,3,cp___(o6,4, *textIn))))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:158:9: note: here 158 | case 1: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h: In function ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:395:130: warning: this statement may fall through [-Wimplicit-fallthrough=] 395 | /* 6 */ cp___(o6,0, *textIn); ++textIn; o6.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:397:25: note: here 397 | case 5: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:398:131: warning: this statement may fall through [-Wimplicit-fallthrough=] 398 | /* 5 */ cp___(o5,0,cp___(o6,1, *textIn)); ++textIn; o5.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:400:25: note: here 400 | case 4: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:402:162: warning: this statement may fall through [-Wimplicit-fallthrough=] 402 | cp___(o4,0,cp___(o5,1,cp___(o6,2, *textIn))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:404:25: note: here 404 | case 3: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:405:132: warning: this statement may fall through [-Wimplicit-fallthrough=] 405 | /* 3 */ cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))); ++textIn; o3.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:407:25: note: here 407 | case 2: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:409:138: warning: this statement may fall through [-Wimplicit-fallthrough=] 409 | cp___(o2,0,cp___(o3,1,cp___(o4,2,cp___(o5,3,cp___(o6,4, *textIn))))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:411:25: note: here 411 | case 1: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h: In function ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, unsigned int>, long unsigned int, File > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:395:130: warning: this statement may fall through [-Wimplicit-fallthrough=] 395 | /* 6 */ cp___(o6,0, *textIn); ++textIn; o6.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:397:25: note: here 397 | case 5: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:398:131: warning: this statement may fall through [-Wimplicit-fallthrough=] 398 | /* 5 */ cp___(o5,0,cp___(o6,1, *textIn)); ++textIn; o5.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:400:25: note: here 400 | case 4: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:402:162: warning: this statement may fall through [-Wimplicit-fallthrough=] 402 | cp___(o4,0,cp___(o5,1,cp___(o6,2, *textIn))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:404:25: note: here 404 | case 3: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:405:132: warning: this statement may fall through [-Wimplicit-fallthrough=] 405 | /* 3 */ cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))); ++textIn; o3.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:407:25: note: here 407 | case 2: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:409:138: warning: this statement may fall through [-Wimplicit-fallthrough=] 409 | cp___(o2,0,cp___(o3,1,cp___(o4,2,cp___(o5,3,cp___(o6,4, *textIn))))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:411:25: note: here 411 | case 1: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h: In function ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:395:130: warning: this statement may fall through [-Wimplicit-fallthrough=] 395 | /* 6 */ cp___(o6,0, *textIn); ++textIn; o6.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:397:25: note: here 397 | case 5: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:398:131: warning: this statement may fall through [-Wimplicit-fallthrough=] 398 | /* 5 */ cp___(o5,0,cp___(o6,1, *textIn)); ++textIn; o5.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:400:25: note: here 400 | case 4: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:402:162: warning: this statement may fall through [-Wimplicit-fallthrough=] 402 | cp___(o4,0,cp___(o5,1,cp___(o6,2, *textIn))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:404:25: note: here 404 | case 3: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:405:132: warning: this statement may fall through [-Wimplicit-fallthrough=] 405 | /* 3 */ cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))); ++textIn; o3.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:407:25: note: here 407 | case 2: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:409:138: warning: this statement may fall through [-Wimplicit-fallthrough=] 409 | cp___(o2,0,cp___(o3,1,cp___(o4,2,cp___(o5,3,cp___(o6,4, *textIn))))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:411:25: note: here 411 | case 1: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h: In function ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, unsigned int>, unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:395:130: warning: this statement may fall through [-Wimplicit-fallthrough=] 395 | /* 6 */ cp___(o6,0, *textIn); ++textIn; o6.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:397:25: note: here 397 | case 5: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:398:131: warning: this statement may fall through [-Wimplicit-fallthrough=] 398 | /* 5 */ cp___(o5,0,cp___(o6,1, *textIn)); ++textIn; o5.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:400:25: note: here 400 | case 4: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:402:162: warning: this statement may fall through [-Wimplicit-fallthrough=] 402 | cp___(o4,0,cp___(o5,1,cp___(o6,2, *textIn))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:404:25: note: here 404 | case 3: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:405:132: warning: this statement may fall through [-Wimplicit-fallthrough=] 405 | /* 3 */ cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))); ++textIn; o3.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:407:25: note: here 407 | case 2: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:409:138: warning: this statement may fall through [-Wimplicit-fallthrough=] 409 | cp___(o2,0,cp___(o3,1,cp___(o4,2,cp___(o5,3,cp___(o6,4, *textIn))))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:411:25: note: here 411 | case 1: | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, seqan::Iter, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, unsigned long, seqan::AllocateStorage_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, seqan::Iter, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, void, unsigned long>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type)seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, unsigned long>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long)seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘seqan::eraseBack, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&)void’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, seqan::Iter, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, unsigned long, seqan::AllocateStorage_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, seqan::Iter, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, void, unsigned long>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type)seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, unsigned long>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long)seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551424’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘seqan::eraseBack, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&)void’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, seqan::Iter, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, unsigned long, seqan::AllocateStorage_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, seqan::Iter, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, void, unsigned long>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type)seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, unsigned long>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long)seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘seqan::eraseBack, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&)void’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, seqan::Iter, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, unsigned long, seqan::AllocateStorage_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, seqan::Iter, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, void, unsigned long>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type)seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, unsigned long>(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long)seqan::Size, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551424’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘seqan::eraseBack, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >(seqan::String, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&)void’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, seqan::Iter > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, unsigned long, seqan::AllocateStorage_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, seqan::Iter > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, void, unsigned long>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long)seqan::Value > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long)seqan::Value > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type)seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, unsigned long>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long)seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘seqan::eraseBack > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&)void’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, seqan::Iter > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, unsigned long, seqan::AllocateStorage_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, seqan::Iter > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, void, unsigned long>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long)seqan::Value > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long)seqan::Value > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type)seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, unsigned long>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long)seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551424’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘seqan::eraseBack > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&)void’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, seqan::Iter > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, unsigned long, seqan::AllocateStorage_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, seqan::Iter > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, void, unsigned long>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long)seqan::Value > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long)seqan::Value > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type)seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >, unsigned long>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&, unsigned long)seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘seqan::eraseBack > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc > >(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > >, seqan::Alloc >&)void’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, seqan::Iter > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, unsigned long, seqan::AllocateStorage_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, seqan::Iter > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, void, unsigned long>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long)seqan::Value > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long)seqan::Value > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::_reserveStorage > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘seqan::reserve > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type)seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >, unsigned long>(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&, unsigned long)seqan::Size > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551424’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘seqan::eraseBack > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc > >(seqan::String > >, seqan::Owner > >, seqan::IndexSa > >, seqan::VSTree > > >, seqan::Alloc >&)void’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int> > >(seqan::PriorityType >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, unsigned int>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:423:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, unsigned int>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int> > >(seqan::PriorityType >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, unsigned int>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:432:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, unsigned int>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int> > >(seqan::PriorityType >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, unsigned int>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:423:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, unsigned int>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int> > >(seqan::PriorityType >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, unsigned int>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:432:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, unsigned int>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int> > >(seqan::PriorityType >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:423:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int> > >(seqan::PriorityType >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:432:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int> > >(seqan::PriorityType >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:423:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int> > >(seqan::PriorityType >, seqan::Tuple, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:432:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended, seqan::Tuple >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended, seqan::Tuple >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, seqan::Tuple >, seqan::Tag > >, void, unsigned long>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 1u, int> > >(seqan::PriorityType, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 1u, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned int, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned int, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > > >, seqan::Merger7>::insertStream(unsigned int)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:279:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > > >, seqan::Merger7>::insertStream(unsigned int)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended, seqan::Tuple >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended, seqan::Tuple >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, seqan::Tuple >, seqan::Tag > >, void, unsigned long>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 2u, int> > >(seqan::PriorityType, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 2u, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned int, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned int, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > > >, seqan::Merger7>::insertStream(unsigned int)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:289:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > > >, seqan::Merger7>::insertStream(unsigned int)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate, seqan::Tuple, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended, seqan::Tuple, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended, seqan::Tuple, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, seqan::Tuple, seqan::Tag > >, void, unsigned long>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Tuple, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, seqan::Tuple, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Tuple, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, seqan::Tuple, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, seqan::Tuple, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, seqan::Tuple, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, seqan::Tuple, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Tuple, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, seqan::Tuple, seqan::Tag > >, seqan::Alloc > >(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, seqan::Size, seqan::Tuple, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size, seqan::Tuple, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, seqan::Tuple, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Tuple, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop, seqan::Tuple, seqan::Tag > >, seqan::MergeStreamComparer, seqan::Tuple, seqan::Tag >, seqan::_skew3ExtendComp, seqan::Tuple, seqan::Tag >, int> > >(seqan::PriorityType, seqan::Tuple, seqan::Tag > >, seqan::MergeStreamComparer, seqan::Tuple, seqan::Tag >, seqan::_skew3ExtendComp, seqan::Tuple, seqan::Tag >, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned int, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > > >, seqan::Merger3>::operator++() [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger3.h:127:17: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > > >, seqan::Merger3>::operator++() [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tag >, seqan::_skew7NComp >, seqan::Tag >, int> > >(seqan::PriorityType >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tag >, seqan::_skew7NComp >, seqan::Tag >, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘seqan::append >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >&)bool [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘seqan::append >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >&)bool [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tag >, seqan::_skew3NComp >, seqan::Tag >, int> > >(seqan::PriorityType >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tag >, seqan::_skew3NComp >, seqan::Tag >, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘seqan::append >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >&)bool [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘seqan::assign >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >&)bool [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple >, seqan::Tag >, seqan::_skew7NCompMulti >, seqan::Tuple >, seqan::Tag >, int> > >(seqan::PriorityType >, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple >, seqan::Tag >, seqan::_skew7NCompMulti >, seqan::Tuple >, seqan::Tag >, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13, inlined from ‘seqan::append >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘seqan::operator<< >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘seqan::Pipe > >, seqan::Source >, seqan::Caster >, seqan::Multi >, seqan::String > > >::process > >, seqan::Source >, seqan::Caster > >(seqan::Pipe > >, seqan::Source >, seqan::Caster >&)bool [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe > >, seqan::Source >, seqan::Caster >, seqan::Multi >, seqan::String > > >::process > >, seqan::Source >, seqan::Caster > >(seqan::Pipe > >, seqan::Source >, seqan::Caster >&)bool [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple >, seqan::Tag >, seqan::_skew7NCompMulti >, seqan::Tuple >, seqan::Tag >, int> > >(seqan::PriorityType >, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple >, seqan::Tag >, seqan::_skew7NCompMulti >, seqan::Tuple >, seqan::Tag >, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13, inlined from ‘seqan::append >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘seqan::operator<< >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘seqan::Pipe > >, seqan::Source >, seqan::Caster >, seqan::Multi >, seqan::String > > >::process > >, seqan::Source >, seqan::Caster > >(seqan::Pipe > >, seqan::Source >, seqan::Caster >&)bool [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe > >, seqan::Source >, seqan::Caster >, seqan::Multi >, seqan::String > > >::process > >, seqan::Source >, seqan::Caster > >(seqan::Pipe > >, seqan::Source >, seqan::Caster >&)bool [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7NCompMulti >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >(seqan::PriorityType >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7NCompMulti >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13, inlined from ‘seqan::append >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘seqan::operator<< >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘seqan::Pipe, seqan::Alloc > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> >, seqan::Multi >, seqan::String > > >::process, seqan::Alloc > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> > >(seqan::Pipe, seqan::Alloc > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> >&)bool [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe, seqan::Alloc > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> >, seqan::Multi >, seqan::String > > >::process, seqan::Alloc > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> > >(seqan::Pipe, seqan::Alloc > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> >&)bool [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7NCompMulti >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >(seqan::PriorityType >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7NCompMulti >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13, inlined from ‘seqan::append >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘seqan::operator<< >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > >, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned int>, unsigned int, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned int, seqan::Tag >, seqan::String >, unsigned int, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘seqan::Pipe, seqan::Alloc > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> >, seqan::Multi >, seqan::String > > >::process, seqan::Alloc > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> > >(seqan::Pipe, seqan::Alloc > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> >&)bool [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe, seqan::Alloc > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> >, seqan::Multi >, seqan::String > > >::process, seqan::Alloc > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> > >(seqan::Pipe, seqan::Alloc > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> >&)bool [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ [ 80%] Linking CXX executable ../../../bin/join cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/searchjoin && /usr/bin/cmake -E cmake_link_script CMakeFiles/join.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/join.dir/join.cpp.o -o ../../../bin/join -lrt In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toHtml’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/tool_doc.h:284:34: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551568’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘_toHtml’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:423:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:432:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:423:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:432:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_pushState.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:279:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:289:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_16HammingDistance_EEENS7_INS_23BacktrackingSemiGlobal_EEENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS_7NothingEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_16HammingDistance_EEENS7_INS_23BacktrackingSemiGlobal_EEENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS_7NothingEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_16HammingDistance_EEENS4_I7Bottom_EENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_16HammingDistance_EEENS4_I7Bottom_EENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_16HammingDistance_EEENS4_INS_23BacktrackingSemiGlobal_EEENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS_7NothingEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_16HammingDistance_EEENS4_INS_23BacktrackingSemiGlobal_EEENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS_7NothingEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_16HammingDistance_EEENS4_I7Bottom_EENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_16HammingDistance_EEENS4_I7Bottom_EENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I7Bottom_EENS_11StageUpper_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I7Bottom_EENS_11StageUpper_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I7Bottom_EENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I7Bottom_EENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_INS_23BacktrackingSemiGlobal_EEENS_11StageUpper_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS_7NothingEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_INS_23BacktrackingSemiGlobal_EEENS_11StageUpper_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS_7NothingEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_INS_23BacktrackingSemiGlobal_EEENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS_7NothingEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_INS_23BacktrackingSemiGlobal_EEENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS_7NothingEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I7Bottom_EENS_11StageUpper_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I7Bottom_EENS_11StageUpper_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I7Bottom_EENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I7Bottom_EENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_INS_23BacktrackingSemiGlobal_EEENS_11StageUpper_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS_7NothingEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_INS_23BacktrackingSemiGlobal_EEENS_11StageUpper_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS_7NothingEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_INS_23BacktrackingSemiGlobal_EEENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS_7NothingEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_INS_23BacktrackingSemiGlobal_EEENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS_7NothingEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I7Bottom_EENS_11StageUpper_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I7Bottom_EENS_11StageUpper_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I7Bottom_EENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I7Bottom_EENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘pop’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:423:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:432:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘eraseBack’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551424’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘eraseBack’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘eraseBack’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551424’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘eraseBack’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘eraseBack’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551424’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘eraseBack’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘eraseBack’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551424’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘eraseBack’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:423:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:432:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_16HammingDistance_EEENS7_I4Top_EENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_16HammingDistance_EEENS7_I4Top_EENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_16HammingDistance_EEENS7_I4Top_EENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_16HammingDistance_EEENS7_I4Top_EENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_16HammingDistance_EEENS4_I4Top_EENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_16HammingDistance_EEENS4_I4Top_EENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_16HammingDistance_EEENS4_I4Top_EENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_16HammingDistance_EEENS4_I4Top_EENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_16HammingDistance_EEENS7_I7Bottom_EENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_16HammingDistance_EEENS7_I7Bottom_EENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_16HammingDistance_EEENS7_I7Bottom_EENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_16HammingDistance_EEENS7_I7Bottom_EENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I8SmallDb_EEEEEEv6WriterI2DbISD_vESM_NS4_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.1’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:642:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I8SmallDb_EEEEEEv6WriterI2DbISD_vESM_NS4_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.1’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I4Top_EENS_11StageLower_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I4Top_EENS_11StageLower_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I4Top_EENS_11StageUpper_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I4Top_EENS_11StageUpper_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I4Top_EENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I4Top_EENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I4Top_EENS_11StageLower_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I4Top_EENS_11StageLower_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I4Top_EENS_11StageUpper_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I4Top_EENS_11StageUpper_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I4Top_EENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I8SmallDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I4Top_EENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I4Top_EENS_11StageLower_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I4Top_EENS_11StageLower_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I4Top_EENS_11StageUpper_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I4Top_EENS_11StageUpper_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I4Top_EENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I7HugeDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I4Top_EENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I4Top_EENS_11StageLower_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I4Top_EENS_11StageLower_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I4Top_EENS_11StageUpper_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I4Top_EENS_11StageUpper_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I4Top_EENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_I4Top_EENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS4_INS_9Parallel_EEEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_INS_23BacktrackingSemiGlobal_EEENS_11StageUpper_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS_7NothingEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_INS_23BacktrackingSemiGlobal_EEENS_11StageUpper_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS_7NothingEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_INS_23BacktrackingSemiGlobal_EEENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS_7NothingEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_INS_23BacktrackingSemiGlobal_EEENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS_7NothingEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I7Bottom_EENS_11StageUpper_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I7Bottom_EENS_11StageUpper_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I7Bottom_EENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_20LevenshteinDistance_EEENS7_I7Bottom_EENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS7_INS_9Parallel_EEEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_16HammingDistance_EEENS7_INS_23BacktrackingSemiGlobal_EEENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS_7NothingEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringINS_10SimpleTypeIhNS_5Dna5_EEENS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS7_I7HugeDb_EEEESG_SK_NS7_INS_16HammingDistance_EEENS7_INS_23BacktrackingSemiGlobal_EEENS_13StageInitial_E8DbFinderISG_NS_5IndexISG_SK_EEv6WriterI2DbISG_vESV_NS7_I5Join_EEENS_7NothingEEEEvRNS_7Finder2INSR_IT_T0_EENSR_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_16HammingDistance_EEENS4_INS_23BacktrackingSemiGlobal_EEENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS_7NothingEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_16HammingDistance_EEENS4_INS_23BacktrackingSemiGlobal_EEENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS_7NothingEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_INS_23BacktrackingSemiGlobal_EEENS_11StageUpper_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS_7NothingEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_INS_23BacktrackingSemiGlobal_EEENS_11StageUpper_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS_7NothingEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_INS_23BacktrackingSemiGlobal_EEENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS_7NothingEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_ZN5seqan5_findINS_9StringSetINS_6StringIcNS_5AllocINS_3TagI19StringOfMaxSize256_EEEEEENS_5OwnerINS_12ConcatDirectIvEEEEEENS_7IndexSaINS4_I8SmallDb_EEEESD_SH_NS4_INS_20LevenshteinDistance_EEENS4_INS_23BacktrackingSemiGlobal_EEENS_13StageInitial_E8DbFinderISD_NS_5IndexISD_SH_EEv6WriterI2DbISD_vESS_NS4_I5Join_EEENS_7NothingEEEEvRNS_7Finder2INSO_IT_T0_EENSO_IT1_T2_EENS_12BacktrackingIT3_T4_EEEERT6_RKT5_.part.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘operator<<’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘process.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘process.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1, inlined from ‘_find.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_find.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1, inlined from ‘_find.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_find.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1, inlined from ‘_find.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_find.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1, inlined from ‘_find.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_find.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1, inlined from ‘_find.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_find.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1, inlined from ‘_find.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_find.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1, inlined from ‘_find.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_find.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1, inlined from ‘_find.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_find.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I8SmallDb_EEEEEEv6WriterI2DbISD_vESM_NS4_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:634:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I8SmallDb_EEEEEEv6WriterI2DbISD_vESM_NS4_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1275:30, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1241:1, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I8SmallDb_EEEEEEv6WriterI2DbISD_vESM_NS4_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:634:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I8SmallDb_EEEEEEv6WriterI2DbISD_vESM_NS4_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1241:1, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1275:30, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1241:1, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I8SmallDb_EEEEEEv6WriterI2DbISD_vESM_NS4_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:634:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I8SmallDb_EEEEEEv6WriterI2DbISD_vESM_NS4_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1241:1, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I8SmallDb_EEEEEEv6WriterI2DbISD_vESM_NS4_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:634:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I8SmallDb_EEEEEEv6WriterI2DbISD_vESM_NS4_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I7HugeDb_EEEEEEv6WriterI2DbISD_vESM_NS4_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:634:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I7HugeDb_EEEEEEv6WriterI2DbISD_vESM_NS4_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1275:30, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1241:1, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I7HugeDb_EEEEEEv6WriterI2DbISD_vESM_NS4_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:634:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I7HugeDb_EEEEEEv6WriterI2DbISD_vESM_NS4_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1241:1, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1275:30, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1241:1, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I7HugeDb_EEEEEEv6WriterI2DbISD_vESM_NS4_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:634:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I7HugeDb_EEEEEEv6WriterI2DbISD_vESM_NS4_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1241:1, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I7HugeDb_EEEEEEv6WriterI2DbISD_vESM_NS4_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:634:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I7HugeDb_EEEEEEv6WriterI2DbISD_vESM_NS4_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I8SmallDb_EEEEEEv6WriterI2DbISG_vESP_NS7_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:634:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I8SmallDb_EEEEEEv6WriterI2DbISG_vESP_NS7_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1275:30, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1241:1, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I8SmallDb_EEEEEEv6WriterI2DbISG_vESP_NS7_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:634:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I8SmallDb_EEEEEEv6WriterI2DbISG_vESP_NS7_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1241:1, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1275:30, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1241:1, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I8SmallDb_EEEEEEv6WriterI2DbISG_vESP_NS7_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:634:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I8SmallDb_EEEEEEv6WriterI2DbISG_vESP_NS7_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1241:1, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I8SmallDb_EEEEEEv6WriterI2DbISG_vESP_NS7_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:634:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I8SmallDb_EEEEEEv6WriterI2DbISG_vESP_NS7_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I7HugeDb_EEEEEEv6WriterI2DbISG_vESP_NS7_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:634:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I7HugeDb_EEEEEEv6WriterI2DbISG_vESP_NS7_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:426:1, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1275:30, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1241:1, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I7HugeDb_EEEEEEv6WriterI2DbISG_vESP_NS7_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:634:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I7HugeDb_EEEEEEv6WriterI2DbISG_vESP_NS7_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1241:1, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1275:30, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1241:1, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I7HugeDb_EEEEEEv6WriterI2DbISG_vESP_NS7_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:634:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I7HugeDb_EEEEEEv6WriterI2DbISG_vESP_NS7_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_popState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:689:18, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1279:30, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1241:1, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I7HugeDb_EEEEEEv6WriterI2DbISG_vESP_NS7_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.0’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:634:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I7HugeDb_EEEEEEv6WriterI2DbISG_vESP_NS7_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.0’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘operator<<’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘process.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘process.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘operator<<’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘process.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘process.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘operator<<’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘process.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘process.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘assign.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I7HugeDb_EEEEEEv6WriterI2DbISG_vESP_NS7_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.1’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:642:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I7HugeDb_EEEEEEv6WriterI2DbISG_vESP_NS7_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.1’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘operator<<’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘process.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:345:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘process.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I8SmallDb_EEEEEEv6WriterI2DbISG_vESP_NS7_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.1’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:642:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringINS0_10SimpleTypeIhNS0_5Dna5_EEENS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISG_NS0_7IndexSaINS7_I8SmallDb_EEEEEEv6WriterI2DbISG_vESP_NS7_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS7_INS0_9Parallel_EEEE._omp_fn.1’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_popIterators’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:707:14, inlined from ‘_pushState’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:442:18, inlined from ‘_find’ at /builddir/build/BUILD/seqan-1.4.2/extras/include/seqan/index/find_backtracking_exp.h:1271:31, inlined from ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I7HugeDb_EEEEEEv6WriterI2DbISD_vESM_NS4_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.1’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin/finder.h:642:14: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551440’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_Z7executeIN5seqan9StringSetINS0_6StringIcNS0_5AllocINS0_3TagI19StringOfMaxSize256_EEEEEENS0_5OwnerINS0_12ConcatDirectIvEEEEEENS0_5IndexISD_NS0_7IndexSaINS4_I7HugeDb_EEEEEEv6WriterI2DbISD_vESM_NS4_I5Join_EEEEvR8DbFinderIT_T0_T1_T2_NS4_INS0_9Parallel_EEEE._omp_fn.1’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger3.h:127:17: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘operator++.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 80%] Built target join make -f extras/apps/seqan_flexbar/CMakeFiles/test_sflex_demultiplex.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/test_sflex_demultiplex.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar/CMakeFiles/test_sflex_demultiplex.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/seqan_flexbar/CMakeFiles/test_sflex_demultiplex.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/test_sflex_demultiplex.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 82%] Building CXX object extras/apps/seqan_flexbar/CMakeFiles/test_sflex_demultiplex.dir/test_demultiplex.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar && /usr/bin/g++ -DSEQAN_DATE=\"\" -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/seqan_flexbar/CMakeFiles/test_sflex_demultiplex.dir/test_demultiplex.cpp.o -MF CMakeFiles/test_sflex_demultiplex.dir/test_demultiplex.cpp.o.d -o CMakeFiles/test_sflex_demultiplex.dir/test_demultiplex.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:44, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:46: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/deque:67, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:41: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/stream.h:86, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/score.h:42, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:62, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:49: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:45:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:54:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:63:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 63 | struct filterI3 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:401:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 401 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:507:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 507 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:78: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:42:48: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public ::std::binary_function < PageBucket, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:57:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:257:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 257 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:372:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 372 | struct insertBucket : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_set.h:373:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:404:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 404 | public::std::binary_function // functor for operator> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:744:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 744 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:760:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 760 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:80: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:854:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 854 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:902:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 902 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:970:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 970 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1039:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1039 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1073:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1073 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1121:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1121 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2093:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2093 | struct _qgramComp : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2112:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2112 | public ::std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:46:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 46 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:85:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 85 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:96: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:98:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 98 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:112:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 112 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:127:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:144:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:154:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:99: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:110:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 110 | public ::std::binary_function < SkewDCStream, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:143:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 143 | public ::std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:100: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:99:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 99 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:118:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:132:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 132 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:154:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:175:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 175 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:185:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 185 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:103: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:57:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:97:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 97 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:141:29: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:109: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:59:42: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:164:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, KasaiOriginal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:312:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 312 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:313:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 313 | LCP[isa - 1] = h; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:379:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 379 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:380:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 380 | LCP[i] = h | mark; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const StringSet&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:483:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 483 | for(TSize hMax = _min(getValueI2((TPair)dec), n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:484:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 484 | LCP[i] = h | mark; | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:113: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h:144:50: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:585:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 585 | public ::std::binary_function< Pair, Pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:128: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In function ‘void seqan::_storeWotdChildren(Index > >&, TSize, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:504:27: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 504 | } else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:506:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 506 | for (TDirSize d = index.sentinelBound - index.sentinelOcc; d != index.sentinelBound; ++d) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:136: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h:149:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 149 | struct RepeatLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:157: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h: In function ‘typename seqan::Iterator >::Type seqan::_upperBoundLcpe(TText&, TSA&, SearchTreeIterator, TQuery&, TDiff_, TDiff_)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1498:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1498 | for(; i && ordEqual(*t, convert(*q)); --i, ++t, ++q) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1501 | if (q == qEnd || t == tEnd || !ordGreater(*t, convert(*q))) { | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/fai_index.h:40, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:83, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:50: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:69, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:51, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find.h:43: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, const TSource&) [with TTarget = Index > >, IndexEsa<> >; TSource = Index > >, IndexEsa<> >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:1020:15: required from ‘void seqan::assignValue(Holder >&, const TSource&) [with TValue = Index > >, IndexEsa<> >; TSource = Index > >, IndexEsa<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1020 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:1065:24: required from ‘void seqan::assign(Holder >&, const Holder >&) [with TValue = Index > >, IndexEsa<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1065 | assignValue(target_, value(source_)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:170:15: required from ‘const seqan::Holder >& seqan::Holder >::operator=(const seqan::Holder >&) [with TValue = seqan::Index > >, seqan::IndexEsa<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 170 | assign(*this, source_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index.h:67:8: required from ‘void findAllExactIndex(seqan::String&, const TPrefices&, const TFinder&, TStats&) [with TPrefices = seqan::StringSet > >; TFinder = seqan::Finder > >, seqan::IndexEsa<> > >; TStats = DemultiplexStats]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 67 | class Finder< Index, TSpecFinder > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:322:22: required from ‘void SEQAN_TEST_findAllExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 322 | findAllExactIndex(res, readPieces, esaFinder, demultiplexStats); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:552:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:142:12: warning: implicitly-declared ‘seqan::Index > >, seqan::IndexEsa<> >& seqan::Index > >, seqan::IndexEsa<> >::operator=(const seqan::Index > >, seqan::IndexEsa<> >&)’ is deprecated [-Wdeprecated-copy] 142 | target = source; | ~~~~~~~^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:125: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: because ‘seqan::Index > >, seqan::IndexEsa<> >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet > >; TSpec = void]’ 548 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, const TSource&) [with TTarget = Index, Alloc<> > >, IndexEsa<> >; TSource = Index, Alloc<> > >, IndexEsa<> >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:1020:15: required from ‘void seqan::assignValue(Holder >&, const TSource&) [with TValue = Index, Alloc<> > >, IndexEsa<> >; TSource = Index, Alloc<> > >, IndexEsa<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 1020 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:1065:24: required from ‘void seqan::assign(Holder >&, const Holder >&) [with TValue = Index, Alloc<> > >, IndexEsa<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 1065 | assignValue(target_, value(source_)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:170:15: required from ‘const seqan::Holder >& seqan::Holder >::operator=(const seqan::Holder >&) [with TValue = seqan::Index, seqan::Alloc<> > >, seqan::IndexEsa<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 170 | assign(*this, source_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index.h:67:8: required from ‘void findAllExactIndex(seqan::String&, const TPrefices&, const TFinder&, TStats&) [with TPrefices = seqan::StringSet > >; TFinder = seqan::Finder, seqan::Alloc<> > >, seqan::IndexEsa<> > >; TStats = DemultiplexStats]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 67 | class Finder< Index, TSpecFinder > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/demultiplex.h:458:19: required from ‘void doAll(seqan::StringSet >&, TMultiplex&, TBarcodes&, TFinder&, DemultiplexStats&, bool) [with TBarcodes = seqan::StringSet, seqan::Alloc<> > >; TMultiplex = seqan::StringSet > >; TFinder = seqan::Finder, seqan::Alloc<> > >, seqan::IndexEsa<> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 458 | findAllExactIndex(matches, multiplex, esaFinder, stats); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:501:10: required from ‘void SEQAN_TEST_doAll_Exact_Multiplex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 501 | doAll(res, multiplex, barcodes, esaFinder, demultiplexStats, false); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:557:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:142:12: warning: implicitly-declared ‘seqan::Index, seqan::Alloc<> > >, seqan::IndexEsa<> >& seqan::Index, seqan::Alloc<> > >, seqan::IndexEsa<> >::operator=(const seqan::Index, seqan::Alloc<> > >, seqan::IndexEsa<> >&)’ is deprecated [-Wdeprecated-copy] 142 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: because ‘seqan::Index, seqan::Alloc<> > >, seqan::IndexEsa<> >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet, seqan::Alloc<> > >; TSpec = void]’ 548 | Index(Index const &other): | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:131:16: required from ‘seqan::String >::String(const seqan::String >&) [with TValue = seqan::SimpleType; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 131 | reserve(*this, std::min(capacity(source), computeGenerousCapacity(source, length(source))), Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:177:13: required from ‘void SEQAN_TEST_buildVariations_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 177 | Dna5String barcode = "ACTNG"; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:549:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:116: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_base.h: In instantiation of ‘void seqan::posLocalize(TResult&, const Pair&, const String&) [with TResult = Pair >; TSize = long unsigned int; TSpec = Alloc<>; T1 = long unsigned int; T2 = long unsigned int; TPack = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_base.h:768:16: required from ‘typename seqan::Suffix::Type seqan::suffix(const StringSet&, const TPosition&) [with TString = String >; TSpec = Owner<>; TPosition = Pair >; typename Suffix::Type = Segment >, SuffixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 768 | posLocalize(lPos, pos, stringSetLimits(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:803:25: required from ‘seqan::Pair >::Type> seqan::_equalRangeSA(TText&, SearchTreeIterator, TQuery&, typename Difference::Type) [with TText = const StringSet > >; TSA = const String >, Alloc<> >; TSpec = SortedList; TQuery = const String >; typename Iterator >::Type = const Pair >*; typename Difference::Type = long int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 803 | TSuffix suf = suffix(text, *treeIter); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:897:23: required from ‘seqan::Pair >::Type> seqan::equalRangeSAIterator(const TText&, const TSA&, const TQuery&) [with TText = StringSet > >; TSA = String >, Alloc<> >; TQuery = String >; typename Iterator >::Type = const Pair >*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 897 | return _equalRangeSA(text, SearchTreeIterator(sa), query); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1930:38: required from ‘void seqan::_findFirstIndex(Finder, TSpecFinder>&, const TPattern&, EsaFindMlr) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecFinder = const Tag; TPattern = String >; EsaFindMlr = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1930 | finder.range = equalRangeSAIterator(indexText(index), indexSA(index), pattern); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index.h:292:19: required from ‘bool seqan::find(Finder, TSpecFinder>&, const TPattern&) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecFinder = const Tag; TPattern = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 292 | _findFirstIndex(finder, needle(pattern), TSpecFinder()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/demultiplex.h:274:10: required from ‘int findExactIndex(const TPrefix&, TFinder&) [with TPrefix = seqan::String >; TFinder = seqan::Finder > >, seqan::IndexEsa<> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 274 | if (find(finder, prefix)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:290:27: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 290 | int res = findExactIndex(readPieces[i], esaFinder); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_base.h:699:12: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 699 | result = pos; | ~~~~~~~^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:55, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:71: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:56: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 110 | suffixArray << creator; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:802:19: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 802 | *_cur = *src; | ~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Alloc<> >; TSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 110 | suffixArray << creator; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:498:14: required from ‘void SEQAN_TEST_doAll_Exact_Multiplex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 498 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:557:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:802:19: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 802 | *_cur = *src; | ~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/read_fasta_fastq.h:262:12: required from ‘int seqan::_clearAndReserveMemory(TIdString&, TSeqString&, RecordReader >&, const TTag&) [with TIdString = String >; TSeqString = String >; TFile = String >; TSpec = Tag; TTag = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 262 | reserve(seq, seqLength, Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/read_fasta_fastq.h:557:37: required from ‘int seqan::readRecord(TIdString&, TSeqString&, RecordReader&, const Fasta&) [with TIdString = String >; TSeqString = String >; TFile = String >; TPass = DoublePass >; Fasta = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 557 | int res = _clearAndReserveMemory(meta, seq, reader, Fasta()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:653:49: required from ‘int seqan::SequenceStreamImpl_::readBatch(seqan::StringSet&, seqan::StringSet&, unsigned int, const TFormatTag&) [with TId = seqan::String >; TIdSpec = seqan::Owner<>; TSequence = seqan::String >; TSeqSpec = seqan::Owner<>; TFormatTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 653 | if ((res = seqan::readRecord(id, seq, *_mmapReaderDoublePass, tag)) != 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream.h:819:37: required from ‘int seqan::readBatch(StringSet&, StringSet&, SequenceStream&, unsigned int) [with TId = String >; TIdSpec = Owner<>; TSequence = String >; TSeqSpec = Owner<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 819 | res = seqIO._impl->readBatch(ids, seqs, num, Fasta()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:72:15: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 72 | if (readBatch(ids, seqs, seqStream, records) != 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/read_fasta_fastq.h:262:12: required from ‘int seqan::_clearAndReserveMemory(TIdString&, TSeqString&, RecordReader >&, const TTag&) [with TIdString = String >; TSeqString = String, Alloc<> >; TFile = String >; TSpec = Tag; TTag = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 262 | reserve(seq, seqLength, Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/read_fasta_fastq.h:557:37: required from ‘int seqan::readRecord(TIdString&, TSeqString&, RecordReader&, const Fasta&) [with TIdString = String >; TSeqString = String, Alloc<> >; TFile = String >; TPass = DoublePass >; Fasta = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 557 | int res = _clearAndReserveMemory(meta, seq, reader, Fasta()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:823:49: required from ‘int seqan::SequenceStreamImpl_::readAll(seqan::StringSet&, seqan::StringSet&, const TFormatTag&) [with TId = seqan::String >; TIdSpec = seqan::Owner<>; TSequence = seqan::String, seqan::Alloc<> >; TSeqSpec = seqan::Owner<>; TFormatTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 823 | if ((res = seqan::readRecord(id, seq, *_mmapReaderDoublePass, tag)) != 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream.h:940:35: required from ‘int seqan::readAll(StringSet&, StringSet&, SequenceStream&) [with TId = String >; TIdSpec = Owner<>; TSequence = String, Alloc<> >; TSeqSpec = Owner<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 940 | res = seqIO._impl->readAll(ids, seqs, Fasta()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:90:13: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 90 | if (readAll(bcids, bcs, bcStream) != 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:98: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h: In instantiation of ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 6, Tag >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 6, Tag >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 4, Tag >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 5, Tag >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, Tag >, Tag >, MapperSpec >, Tuple, Tuple, 6, Tag >, Tag >, long unsigned int>, long unsigned int, File > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 108 | creator_t creator(unsigner, stringSetLimits(stringSet)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:347:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 347 | o1.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:357:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 357 | o0.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:361:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | o3.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:365:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 365 | o5.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:369:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 369 | o6.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:395:125: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 395 | /* 6 */ cp___(o6,0, *textIn); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:398:126: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 398 | /* 5 */ cp___(o5,0,cp___(o6,1, *textIn)); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:401:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 401 | /* 4 */ o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:405:127: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 405 | /* 3 */ cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:408:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 408 | /* 2 */ o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:412:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 412 | /* 1 */ o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:424:128: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 424 | /* 0 */ cp___(o0,0,cp___(o1,1,cp___(o2,2,cp___(o3,3, *textIn)))); ++textIn; o0.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:426:129: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 426 | /* 6 */ cp___(o0,1,cp___(o1,2,cp___(o2,3,cp___(o3,4, cp___(o6,0, *textIn))))); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:428:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 428 | /* 5 */ cp___(o0,2,cp___(o1,3,cp___(o2,4,cp___(o3,5, cp___(o5,0,cp___(o6,1, *textIn)))))); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:430:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 430 | /* 4 */ o0.i2[0] = o1.i2[1] = o2.i2[2] = o3.i2[2] = o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:435:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 435 | /* 3 */ cp___(o0,4,cp___(o1,5, cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:437:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 437 | /* 2 */ o0.i2[1] = o1.i2[2] = o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:441:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 441 | /* 1 */ o0.i2[2] = o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:454:128: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 454 | /* 0 */ cp___(o0,0,cp___(o1,1,cp___(o2,2,cp___(o3,3, *textIn)))); ++textIn; o0.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:456:129: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 456 | /* 6 */ cp___(o0,1,cp___(o1,2,cp___(o2,3,cp___(o3,4, cp___(o6,0, *textIn))))); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:458:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 458 | /* 5 */ cp___(o0,2,cp___(o1,3,cp___(o2,4,cp___(o3,5, cp___(o5,0,cp___(o6,1, *textIn)))))); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:460:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 460 | /* 4 */ o0.i2[0] = o1.i2[1] = o2.i2[2] = o3.i2[2] = o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:465:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 465 | /* 3 */ cp___(o0,4,cp___(o1,5, cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:467:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 467 | /* 2 */ o0.i2[1] = o1.i2[2] = o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:471:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 471 | /* 1 */ o0.i2[2] = o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index > >, IndexEsa<> >; TSource = Index > >, IndexEsa<> >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index > >, IndexEsa<> >; TValue2 = Index > >, IndexEsa<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index > >, IndexEsa<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index > >, IndexEsa<> >; typename Reference > >::Type = Index > >, IndexEsa<> >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index.h:118:15: required from ‘typename seqan::Parameter_ >::Type seqan::container(Finder, TSpecFinder>&) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecFinder = const Tag; typename Parameter_ >::Type = Index > >, IndexEsa<> >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 118 | return value(me.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:1165:18: required from ‘typename seqan::Parameter_::Type>::Type seqan::haystack(TObject&) [with TObject = Finder > >, IndexEsa<> > >; typename Parameter_::Type>::Type = Index > >, IndexEsa<> >&; typename Haystack::Type = Index > >, IndexEsa<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1165 | return container(obj); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1928:40: required from ‘void seqan::_findFirstIndex(Finder, TSpecFinder>&, const TPattern&, EsaFindMlr) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecFinder = const Tag; TPattern = String >; EsaFindMlr = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1928 | Index &index = haystack(finder); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index.h:292:19: required from ‘bool seqan::find(Finder, TSpecFinder>&, const TPattern&) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecFinder = const Tag; TPattern = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 292 | _findFirstIndex(finder, needle(pattern), TSpecFinder()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/demultiplex.h:274:10: required from ‘int findExactIndex(const TPrefix&, TFinder&) [with TPrefix = seqan::String >; TFinder = seqan::Finder > >, seqan::IndexEsa<> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 274 | if (find(finder, prefix)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:290:27: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 290 | int res = findExactIndex(readPieces[i], esaFinder); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index > >, seqan::IndexEsa<> >& seqan::Index > >, seqan::IndexEsa<> >::operator=(const seqan::Index > >, seqan::IndexEsa<> >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: because ‘seqan::Index > >, seqan::IndexEsa<> >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet > >; TSpec = void]’ 548 | Index(Index const &other): | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h: In instantiation of ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Alloc<> >; TSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 108 | creator_t creator(unsigner, stringSetLimits(stringSet)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:498:14: required from ‘void SEQAN_TEST_doAll_Exact_Multiplex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 498 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:557:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:347:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 347 | o1.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:357:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 357 | o0.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:361:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | o3.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:365:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 365 | o5.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:369:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 369 | o6.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:395:125: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 395 | /* 6 */ cp___(o6,0, *textIn); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:398:126: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 398 | /* 5 */ cp___(o5,0,cp___(o6,1, *textIn)); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:401:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 401 | /* 4 */ o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:405:127: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 405 | /* 3 */ cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:408:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 408 | /* 2 */ o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:412:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 412 | /* 1 */ o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:424:128: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 424 | /* 0 */ cp___(o0,0,cp___(o1,1,cp___(o2,2,cp___(o3,3, *textIn)))); ++textIn; o0.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:426:129: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 426 | /* 6 */ cp___(o0,1,cp___(o1,2,cp___(o2,3,cp___(o3,4, cp___(o6,0, *textIn))))); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:428:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 428 | /* 5 */ cp___(o0,2,cp___(o1,3,cp___(o2,4,cp___(o3,5, cp___(o5,0,cp___(o6,1, *textIn)))))); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:430:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 430 | /* 4 */ o0.i2[0] = o1.i2[1] = o2.i2[2] = o3.i2[2] = o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:435:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 435 | /* 3 */ cp___(o0,4,cp___(o1,5, cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:437:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 437 | /* 2 */ o0.i2[1] = o1.i2[2] = o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:441:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 441 | /* 1 */ o0.i2[2] = o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:454:128: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 454 | /* 0 */ cp___(o0,0,cp___(o1,1,cp___(o2,2,cp___(o3,3, *textIn)))); ++textIn; o0.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:456:129: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 456 | /* 6 */ cp___(o0,1,cp___(o1,2,cp___(o2,3,cp___(o3,4, cp___(o6,0, *textIn))))); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:458:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 458 | /* 5 */ cp___(o0,2,cp___(o1,3,cp___(o2,4,cp___(o3,5, cp___(o5,0,cp___(o6,1, *textIn)))))); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:460:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 460 | /* 4 */ o0.i2[0] = o1.i2[1] = o2.i2[2] = o3.i2[2] = o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:465:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 465 | /* 3 */ cp___(o0,4,cp___(o1,5, cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:467:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 467 | /* 2 */ o0.i2[1] = o1.i2[2] = o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:471:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 471 | /* 1 */ o0.i2[2] = o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::setHost(PairIncrementer_&, const TLimits2&) [with TPair = Pair >; TLimits = String >; TLimits2 = String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:382:10: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 6, Tag >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 6, Tag >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 4, Tag >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 5, Tag >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, Tag >, Tag >, MapperSpec >, Tuple, Tuple, 6, Tag >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 382 | setHost(p, limits); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 108 | creator_t creator(unsigner, stringSetLimits(stringSet)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:1032:16: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1032 | me.pos = TPair(0, 0); | ~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::pop(Pipe&, TValue&) [with TInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >, Skew7>; TSpec = Counter; TValue = Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_separator7.h:62:7: required from ‘void seqan::_skew7SeparateSlices(TInput&, const TFunctor&, TOut1&, TOut2&, TOut4&) [with TInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >, Skew7>, Counter>; TFunctor = _skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > >; TOut1 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut2 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut4 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 62 | pop(in, i); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:386:26: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 386 | _skew7SeparateSlices( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^ 387 | renamer, func_slice, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~ 388 | names_S1, names_S2, names_S4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 108 | creator_t creator(unsigner, stringSetLimits(stringSet)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:619:14: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 619 | Ref_ = *me; | ~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:218:12: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 218 | struct Pipe< TInput, Multi > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::Tag >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1444:21: required from ‘void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1444 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1465:31: required from ‘void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1465 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:849:31: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 849 | arrayConstructMove(old_array, old_array + start, seq_array); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: required from ‘typename seqan::Size >::Type seqan::_clearSpace(String&, TSize, TPosition, TPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long unsigned int; TPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1014 | return ClearSpaceStringBase_ >::_clearSpace_(me, size, pos_begin, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1048:30: required from ‘typename seqan::Size >::Type seqan::resizeSpace(String&, TSize, TBeginPosition, TEndPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = int; TBeginPosition = int; TEndPosition = unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1048 | TSize_ ret_ = _clearSpace( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^ 1049 | me, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~ 1050 | static_cast(size), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 1051 | static_cast(pos_begin), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1052 | static_cast(pos_end), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1053 | tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2212:23: required from ‘TSize seqan::resizeSpace(T&, TSize, TBeginPosition, TEndPosition) [with T = String >; TSize = int; TBeginPosition = int; TEndPosition = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 2212 | return resizeSpace(me, size, pos_begin, pos_end, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2267:16: required from ‘void seqan::erase(T&, TBeginPosition, TEndPosition) [with T = String >; TBeginPosition = int; TEndPosition = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 2267 | resizeSpace(me, 0, pos, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/demultiplex.h:355:9: required from ‘void clipBarcodes(TSeqs&, const seqan::String&, unsigned int) [with TSeqs = seqan::StringSet > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 355 | erase(seqs[i], 0 , len); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:344:14: required from ‘void SEQAN_TEST_clipBarcodes_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 344 | clipBarcodes(seqs, matches, 6); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:553:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1589:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1589 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:218:12: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Alloc<> >; TSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 218 | struct Pipe< TInput, Multi > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:498:14: required from ‘void SEQAN_TEST_doAll_Exact_Multiplex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 498 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:557:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveBackwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1641:30: required from ‘void seqan::arrayMoveBackward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1641 | _arrayMoveBackwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1213:26: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = SimpleType*; TSource1 = SimpleType*; TSource2 = SimpleType*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1213 | arrayMoveBackward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1660:14: required from ‘void seqan::_arrayClearSpacePointer(TValue*, size_t, size_t, size_t, const True&) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1660 | arrayMove(array_begin + keep_from, array_begin + array_length, array_begin + move_to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1681:28: required from ‘void seqan::arrayClearSpace(TValue*, size_t, size_t, size_t) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1681 | _arrayClearSpacePointer(array_begin, array_length, keep_from, move_to, typename IsSimple::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:856:28: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1048:30: required from ‘typename seqan::Size >::Type seqan::resizeSpace(String&, TSize, TBeginPosition, TEndPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = int; TBeginPosition = int; TEndPosition = unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1048 | TSize_ ret_ = _clearSpace( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^ 1049 | me, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~ 1050 | static_cast(size), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 1051 | static_cast(pos_begin), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1052 | static_cast(pos_end), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1053 | tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2212:23: required from ‘TSize seqan::resizeSpace(T&, TSize, TBeginPosition, TEndPosition) [with T = String >; TSize = int; TBeginPosition = int; TEndPosition = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 2212 | return resizeSpace(me, size, pos_begin, pos_end, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2267:16: required from ‘void seqan::erase(T&, TBeginPosition, TEndPosition) [with T = String >; TBeginPosition = int; TEndPosition = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 2267 | resizeSpace(me, 0, pos, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/demultiplex.h:355:9: required from ‘void clipBarcodes(TSeqs&, const seqan::String&, unsigned int) [with TSeqs = seqan::StringSet > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 355 | erase(seqs[i], 0 , len); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:344:14: required from ‘void SEQAN_TEST_clipBarcodes_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 344 | clipBarcodes(seqs, matches, 6); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:553:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1621:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1621 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index, Alloc<> > >, IndexEsa<> >; TSource = Index, Alloc<> > >, IndexEsa<> >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index, Alloc<> > >, IndexEsa<> >; TValue2 = Index, Alloc<> > >, IndexEsa<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index, Alloc<> > >, IndexEsa<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index, Alloc<> > >, IndexEsa<> >; typename Reference > >::Type = Index, Alloc<> > >, IndexEsa<> >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index.h:118:15: required from ‘typename seqan::Parameter_ >::Type seqan::container(Finder, TSpecFinder>&) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecFinder = const Tag; typename Parameter_ >::Type = Index, Alloc<> > >, IndexEsa<> >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 118 | return value(me.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:1165:18: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index.h:292:19: required from ‘bool seqan::find(Finder, TSpecFinder>&, const TPattern&) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecFinder = const Tag; TPattern = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 292 | _findFirstIndex(finder, needle(pattern), TSpecFinder()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/demultiplex.h:274:10: required from ‘int findExactIndex(const TPrefix&, TFinder&) [with TPrefix = seqan::String >; TFinder = seqan::Finder, seqan::Alloc<> > >, seqan::IndexEsa<> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 274 | if (find(finder, prefix)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/demultiplex.h:326:33: required from ‘void findAllExactIndex(seqan::String&, const TPrefices&, const TFinder&, TStats&) [with TPrefices = seqan::StringSet > >; TFinder = seqan::Finder, seqan::Alloc<> > >, seqan::IndexEsa<> > >; TStats = DemultiplexStats]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 326 | int hit = findExactIndex(prefices[i], finderSet[tid]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/demultiplex.h:458:19: required from ‘void doAll(seqan::StringSet >&, TMultiplex&, TBarcodes&, TFinder&, DemultiplexStats&, bool) [with TBarcodes = seqan::StringSet, seqan::Alloc<> > >; TMultiplex = seqan::StringSet > >; TFinder = seqan::Finder, seqan::Alloc<> > >, seqan::IndexEsa<> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 458 | findAllExactIndex(matches, multiplex, esaFinder, stats); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:501:10: required from ‘void SEQAN_TEST_doAll_Exact_Multiplex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 501 | doAll(res, multiplex, barcodes, esaFinder, demultiplexStats, false); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:557:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index, seqan::Alloc<> > >, seqan::IndexEsa<> >& seqan::Index, seqan::Alloc<> > >, seqan::IndexEsa<> >::operator=(const seqan::Index, seqan::Alloc<> > >, seqan::IndexEsa<> >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: because ‘seqan::Index, seqan::Alloc<> > >, seqan::IndexEsa<> >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet, seqan::Alloc<> > >; TSpec = void]’ 548 | Index(Index const &other): | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:65: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h: In instantiation of ‘seqan::Pipe, TPair, TLimitsString> >& seqan::Pipe, TPair, TLimitsString> >::operator++() [with TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPack = seqan::Tag; TPair = seqan::Pair >; TLimitsString = seqan::String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, Tag >, Tag >; TSpec = SorterSpec >, Tuple, 7, Tag >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, Tag >, Tag >; TSpec = SorterSpec >, Tuple, 7, Tag >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, Tag >, Tag >; TSpec = SorterSpec >, Tuple, 7, Tag >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:317:20: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 317 | sorter << sampler; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:497:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 497 | tmpRef->i1 = localPos; | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:324:41: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 324 | TNames_Sliced names_sliced; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::pop(TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:925:24: required from ‘void seqan::Pool::pop(TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 925 | reader->pop(Ref_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1159:15: required from ‘void seqan::pop(Pool&, TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1159 | me.pop(Ref_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_separator7.h:62:7: required from ‘void seqan::_skew7SeparateSlices(TInput&, const TFunctor&, TOut1&, TOut2&, TOut4&) [with TInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TFunctor = _skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > >; TOut1 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut2 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut4 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 62 | pop(in, i); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:342:25: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 342 | _skew7SeparateSlices( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^ 343 | names_sliced, func_slice, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~ 344 | names_S1, names_S2, names_S4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:926:18: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 926 | Ref_ = *cur; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 5, Tag >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 5, Tag >, Tag >, 2, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:414:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 6, Tag >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 6, Tag >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 4, Tag >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 5, Tag >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, Tag >, Tag >, MapperSpec >, Tuple, Tuple, 6, Tag >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 414 | if (r >= 6) push(out6, o6); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 5, seqan::Tag >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 4, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::Tag >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 4, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::Tag >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::Tag >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::Tag >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::Tag >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 4, Tag >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 4, Tag >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:415:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 6, Tag >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 6, Tag >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 4, Tag >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 5, Tag >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, Tag >, Tag >, MapperSpec >, Tuple, Tuple, 6, Tag >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 415 | if (r >= 5) push(out5, o5); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::Tag >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::Tag >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::Tag >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::Tag >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 4, seqan::Tag >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, Tag >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 6, Tag >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:432:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 6, Tag >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 6, Tag >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 4, Tag >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 5, Tag >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, Tag >, Tag >, MapperSpec >, Tuple, Tuple, 6, Tag >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 432 | if (r >= 3) push(out3, o3); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::Tag >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, Tag >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 6, Tag >, Tag >, 3, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:443:9: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 6, Tag >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 6, Tag >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 4, Tag >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 5, Tag >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, Tag >, Tag >, MapperSpec >, Tuple, Tuple, 6, Tag >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 443 | push(out0, o0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::Tag >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:243:12: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 243 | struct Pipe< TInput, Skew7 > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::Tag >; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::Tag >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:404:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::Tag >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 404 | _copy(inValue[0], *in.in1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::Tag >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:376:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 376 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: ‘struct seqan::Pair >’ declared here 95 | struct Pair | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 4, seqan::Tag >; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::Tag >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:422:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::Tag >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 422 | _copy(inValue[5], *in.in3); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::Tag >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:376:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 376 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: ‘struct seqan::Pair >’ declared here 95 | struct Pair | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 5, seqan::Tag >; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::Tag >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:431:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::Tag >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 431 | _copy(inValue[6], *in.in4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::Tag >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe > > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:376:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 376 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: ‘struct seqan::Pair >’ declared here 95 | struct Pair | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h: In instantiation of ‘seqan::Pipe >, TPair, TLimitsString> >& seqan::Pipe >, TPair, TLimitsString> >::operator++() [with TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPair = seqan::Pair >; TLimitsString = seqan::String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:317:20: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 317 | sorter << sampler; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:498:14: required from ‘void SEQAN_TEST_doAll_Exact_Multiplex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 498 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:557:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:599:20: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 599 | tmp.i1 = localPos; | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 5, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:414:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 414 | if (r >= 6) push(out6, o6); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:498:14: required from ‘void SEQAN_TEST_doAll_Exact_Multiplex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 498 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:557:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 5, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 4, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:415:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 415 | if (r >= 5) push(out5, o5); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:498:14: required from ‘void SEQAN_TEST_doAll_Exact_Multiplex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 498 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:557:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 4, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:432:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 432 | if (r >= 3) push(out3, o3); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:498:14: required from ‘void SEQAN_TEST_doAll_Exact_Multiplex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 498 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:557:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:443:9: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 443 | push(out0, o0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:498:14: required from ‘void SEQAN_TEST_doAll_Exact_Multiplex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 498 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:557:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >, seqan::Tag >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T = seqan::SimpleType; unsigned int SIZE = 6; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:404:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 404 | _copy(inValue[0], *in.in1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:498:14: required from ‘void SEQAN_TEST_doAll_Exact_Multiplex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 498 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:557:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:385:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 385 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: ‘struct seqan::Pair >’ declared here 95 | struct Pair | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >, seqan::Tag >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T = seqan::SimpleType; unsigned int SIZE = 4; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:422:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 422 | _copy(inValue[5], *in.in3); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:498:14: required from ‘void SEQAN_TEST_doAll_Exact_Multiplex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 498 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:557:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:385:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 385 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: ‘struct seqan::Pair >’ declared here 95 | struct Pair | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >, seqan::Tag >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T = seqan::SimpleType; unsigned int SIZE = 5; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:431:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 431 | _copy(inValue[6], *in.in4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:498:14: required from ‘void SEQAN_TEST_doAll_Exact_Multiplex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 498 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:557:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:385:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 385 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: ‘struct seqan::Pair >’ declared here 95 | struct Pair | ^~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:64: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘const typename seqan::Value > >::Type& seqan::Pipe >::operator*() [with TInput = seqan::Pool >, seqan::Tuple, 7, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::Tag >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NCompMulti >, seqan::Tuple, 7, seqan::Tag >, seqan::Tag >, int>; typename seqan::Value > >::Type = seqan::Pair >, long unsigned int, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:148:22: required from ‘const typename seqan::Value > >::Type seqan::Pipe >::operator*() const [with TInput = seqan::Pipe >, seqan::Tuple, 7, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::Tag >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7, seqan::Tag >, seqan::Tag >, int> > >; TFunctor = seqan::_skew7GlobalSlicedMulti >, long unsigned int, seqan::Tag >, seqan::String >, long unsigned int, seqan::Pair > >; typename seqan::Value > >::Type = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 148 | return F(*in); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:24: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, Tag >, Tag >, SorterSpec >, Tuple, 7, Tag >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, Tag >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, Tag >, Tag >, SorterSpec >, Tuple, 7, Tag >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, Tag >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, Tag >, Tag >, SorterSpec >, Tuple, 7, Tag >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, Tag >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 328 | names_sliced << slicedPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:134:20: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 134 | tmp.i1 = getValueI1(*in); | ~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tuple, 7, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::Tag >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NCompMulti >, seqan::Tuple, 7, seqan::Tag >, seqan::Tag >, int>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe >, seqan::Tuple, 7, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::Tag >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7, seqan::Tag >, seqan::Tag >, int> > >; TFunctor = seqan::_skew7GlobalSlicedMulti >, long unsigned int, seqan::Tag >, seqan::String >, long unsigned int, seqan::Pair > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 153 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, Tag >, Tag >, SorterSpec >, Tuple, 7, Tag >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, Tag >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, Tag >, Tag >, SorterSpec >, Tuple, 7, Tag >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, Tag >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, Tag >, Tag >, SorterSpec >, Tuple, 7, Tag >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, Tag >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | names_sliced << slicedPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:143:22: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple, 7, seqan::Tag >, seqan::Tag >& seqan::Pair >, seqan::Tuple, 7, seqan::Tag >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple, 7, seqan::Tag >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 143 | last = *in; | ~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple, 7, seqan::Tag >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple, 7, seqan::Tag >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_separator7.h:64:9: required from ‘void seqan::_skew7SeparateSlices(TInput&, const TFunctor&, TOut1&, TOut2&, TOut4&) [with TInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TFunctor = _skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > >; TOut1 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut2 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut4 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 64 | push(out4, i); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:342:25: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 342 | _skew7SeparateSlices( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^ 343 | names_sliced, func_slice, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~ 344 | names_S1, names_S2, names_S4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_separator7.h:64:9: required from ‘void seqan::_skew7SeparateSlices(TInput&, const TFunctor&, TOut1&, TOut2&, TOut4&) [with TInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TFunctor = _skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > >; TOut1 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut2 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut4 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 64 | push(out4, i); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:342:25: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 342 | _skew7SeparateSlices( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^ 343 | names_sliced, func_slice, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~ 344 | names_S1, names_S2, names_S4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, Tag >, Tag >; TSpec = MapperSpec >, Tuple, Tuple, 6, Tag >, Tag >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:416:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 6, Tag >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 6, Tag >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 4, Tag >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 5, Tag >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, Tag >, Tag >, MapperSpec >, Tuple, Tuple, 6, Tag >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 416 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::Tag >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, Tag >, Tag >; TSpec = MapperSpec >, Tuple, Tuple, 6, Tag >, Tag >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:416:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 6, Tag >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 6, Tag >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 4, Tag >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 5, Tag >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, Tag >, Tag >, MapperSpec >, Tuple, Tuple, 6, Tag >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 416 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::Tag >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘const typename seqan::Value > >::Type& seqan::Pipe >::operator*() [with TInput = seqan::Pool >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NCompMulti >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>; typename seqan::Value > >::Type = seqan::Pair >, long unsigned int, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:148:22: required from ‘const typename seqan::Value > >::Type seqan::Pipe >::operator*() const [with TInput = seqan::Pipe >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int> > >; TFunctor = seqan::_skew7GlobalSlicedMulti >, long unsigned int, seqan::Tag >, seqan::String >, long unsigned int, seqan::Pair > >; typename seqan::Value > >::Type = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 148 | return F(*in); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:24: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 328 | names_sliced << slicedPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:498:14: required from ‘void SEQAN_TEST_doAll_Exact_Multiplex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 498 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:557:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:134:20: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 134 | tmp.i1 = getValueI1(*in); | ~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NCompMulti >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int> > >; TFunctor = seqan::_skew7GlobalSlicedMulti >, long unsigned int, seqan::Tag >, seqan::String >, long unsigned int, seqan::Pair > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 153 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | names_sliced << slicedPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:498:14: required from ‘void SEQAN_TEST_doAll_Exact_Multiplex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 498 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:557:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:143:22: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >& seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 143 | last = *in; | ~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple, 7, seqan::BitPacked<> >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TSpec = MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:416:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 416 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:498:14: required from ‘void SEQAN_TEST_doAll_Exact_Multiplex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 498 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:557:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TSpec = MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:416:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 416 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:498:14: required from ‘void SEQAN_TEST_doAll_Exact_Multiplex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 498 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:557:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, 7, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::Tag >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, 7, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::Tag >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Pair >, seqan::Tuple, 7, seqan::Tag >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >, seqan::Tuple, 7, seqan::Tag >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, 7, seqan::Tag >, seqan::Tag >, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >, Tuple, 7, Tag >, Tag >; TSpec = SorterSpec >, Tuple, 7, Tag >, Tag >, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, Tag >, Tag >; TSpec = SorterSpec >, Tuple, 7, Tag >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, Tag >, Tag >; TSpec = SorterSpec >, Tuple, 7, Tag >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, Tag >, Tag >; TSpec = SorterSpec >, Tuple, 7, Tag >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:317:20: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple, 7, seqan::Tag >, seqan::Tag >& seqan::Pair >, seqan::Tuple, 7, seqan::Tag >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple, 7, seqan::Tag >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple, 7, seqan::Tag >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple, 7, seqan::Tag >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘bool seqan::control(Pipe >&, const ControlBeginRead&) [with TInput = Pool >, Tuple, 7, Tag >, Tag >, SorterSpec >, Tuple, 7, Tag >, Tag >, int>, long unsigned int, File > > > >; TCompare = _skew7NCompMulti >, Tuple, 7, Tag >, Tag >, int>; ControlBeginRead = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:651:23: required from ‘bool seqan::control(Pipe&, const TCommand&) [with TInput = Pipe >, Tuple, 7, Tag >, Tag >, SorterSpec >, Tuple, 7, Tag >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, Tag >, Tag >, int> > >; TSpec = Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > >; TCommand = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 651 | return control(me.in, command); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe >, Tuple, 7, Tag >, Tag >, SorterSpec >, Tuple, 7, Tag >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, Tag >, Tag >, int> > >; TSpec = Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, Tag >, Tag >, SorterSpec >, Tuple, 7, Tag >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, Tag >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, Tag >, Tag >, SorterSpec >, Tuple, 7, Tag >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, Tag >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, Tag >, Tag >, SorterSpec >, Tuple, 7, Tag >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, Tag >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:164:21: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple, 7, seqan::Tag >, seqan::Tag >& seqan::Pair >, seqan::Tuple, 7, seqan::Tag >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple, 7, seqan::Tag >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 164 | me.last = *me.in; | ~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple, 7, seqan::Tag >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple, 7, seqan::Tag >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:165:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 165 | me.tmp.i1 = me.last.i1; | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Pair >; TConfig = MapperConfigSize >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:401:106: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 6, Tag >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 6, Tag >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 4, Tag >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 5, Tag >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, Tag >, Tag >, MapperSpec >, Tuple, Tuple, 6, Tag >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 401 | /* 4 */ o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:341:41: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 341 | TNames_Sliced names_sliced(map_sliced); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NComp >, seqan::Tag >, int>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:345:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 345 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:143:22: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 143 | last = *in; | ~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:352:45: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 352 | TNames_Linear_Unique names_linear(map_linear); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:161:29: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 161 | if (r >= 6) push(out6, o6); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:162:29: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 162 | if (r >= 5) push(out5, o5); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:179:29: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 179 | if (r >= 3) push(out3, o3); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:190:17: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 190 | push(out0, o0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:173:12: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 173 | struct Pipe< TInput, Skew3 > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:317:20: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:498:14: required from ‘void SEQAN_TEST_doAll_Exact_Multiplex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 498 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:557:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >& seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple, 7, seqan::BitPacked<> >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘bool seqan::control(Pipe >&, const ControlBeginRead&) [with TInput = Pool >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >; TCompare = _skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int>; ControlBeginRead = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:651:23: required from ‘bool seqan::control(Pipe&, const TCommand&) [with TInput = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >; TSpec = Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > >; TCommand = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 651 | return control(me.in, command); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >; TSpec = Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:498:14: required from ‘void SEQAN_TEST_doAll_Exact_Multiplex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 498 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:557:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:164:21: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >& seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 164 | me.last = *me.in; | ~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple, 7, seqan::BitPacked<> >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:165:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 165 | me.tmp.i1 = me.last.i1; | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::setHost(PairDecrementer_&, const TLimits2&) [with TPair = Pair >; TLimits = String >; unsigned int m = 7; TLimits2 = String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:418:11: required from ‘void seqan::Pipe, TPair, TLimitsString> >::prepare() [with TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPack = seqan::Tag; TPair = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 418 | setHost(localPos, limits); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:613:19: required from ‘bool seqan::control(Pipe, TPair, TLimitsString> >&, const ControlBeginRead&) [with TInput = Pipe > > >, Source<> >, Caster, CasterReinterpret> >; unsigned int m = 7; TPack = Tag; TPair = Pair >; TLimitsString = String >; ControlBeginRead = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 613 | me.prepare(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe > > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, Pair >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, Tag >, Tag >; TSpec = SorterSpec >, Tuple, 7, Tag >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, Tag >, Tag >; TSpec = SorterSpec >, Tuple, 7, Tag >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:1119:16: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1119 | me.pos = TPair(0, 0); | ~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h: In instantiation of ‘void seqan::Pipe, TPair, TLimitsString> >::fill() [with TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPack = seqan::Tag; TPair = seqan::Pair >; TLimitsString = seqan::String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:426:13: required from ‘void seqan::Pipe, TPair, TLimitsString> >::prepare() [with TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPack = seqan::Tag; TPair = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 426 | fill(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:613:19: required from ‘bool seqan::control(Pipe, TPair, TLimitsString> >&, const ControlBeginRead&) [with TInput = Pipe > > >, Source<> >, Caster, CasterReinterpret> >; unsigned int m = 7; TPack = Tag; TPair = Pair >; TLimitsString = String >; ControlBeginRead = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 613 | me.prepare(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe > > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, Pair >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, Tag >, Tag >; TSpec = SorterSpec >, Tuple, 7, Tag >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, Tag >, Tag >; TSpec = SorterSpec >, Tuple, 7, Tag >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:438:24: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 438 | tmpRef->i1 = localPos; | ~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘bool seqan::control(Pipe >&, const ControlBeginRead&) [with TInput = Pool >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >; TCompare = _skew7NComp >, Tag >, int>; ControlBeginRead = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pool >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >; TSpec = Namer<_skew7NComp >, Tag >, int> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:345:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 345 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:164:21: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 164 | me.last = *me.in; | ~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h: In instantiation of ‘TResult seqan::_skew7NComp::operator()(const TValue&, const TValue&) const [with TValue = seqan::Pair >, seqan::Tag >; TResult = int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:141:30: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NComp >, seqan::Tag >, int>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 141 | if (!eof(in) && C(last, *in) != 0) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:345:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 345 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:74:43: warning: taking address of packed member of ‘seqan::Tuple >’ may result in an unaligned pointer value [-Waddress-of-packed-member] 74 | const TStoredValue *sa = a.i2.i; | ~~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: taking address of packed member of ‘seqan::Tuple >’ may result in an unaligned pointer value [-Waddress-of-packed-member] 75 | const TStoredValue *sb = b.i2.i; | ~~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:163:29: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 163 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:163:29: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 163 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h: In instantiation of ‘void seqan::Pipe >, TPair, TLimitsString> >::fill() [with TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPair = seqan::Pair >; TLimitsString = seqan::String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:544:13: required from ‘void seqan::Pipe >, TPair, TLimitsString> >::prepare() [with TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPair = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 544 | fill(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:613:19: required from ‘bool seqan::control(Pipe, TPair, TLimitsString> >&, const ControlBeginRead&) [with TInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; unsigned int m = 7; TPack = BitPacked<>; TPair = Pair >; TLimitsString = String >; ControlBeginRead = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 613 | me.prepare(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, Pair >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:498:14: required from ‘void SEQAN_TEST_doAll_Exact_Multiplex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 498 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:557:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:557:32: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 557 | tmp.i1 = localPos; | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Pair >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >, Sampler<7, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >, Sampler<7, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >, Sampler<7, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:335:20: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Pair >; TConfig = MapperConfigSize<_skew7NMapLinear >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:148:104: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 148 | /* 4 */ o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn).i2; ++nameIn; o4.i1 = p--; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:247:41: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 247 | TNames_Sliced names_sliced(map_sliced); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 218 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:376:34: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TCompare = seqan::_skew3NComp >, seqan::Tag >, int>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:251:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 251 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 218 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:376:34: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:143:22: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 143 | last = *in; | ~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:259:45: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 259 | TNames_Linear_Unique names_linear(map_linear); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 218 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:376:34: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple, Tag >; TSpec = SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender3.h:123:17: required from ‘bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 123 | push(out0, o0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:269:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 269 | _skew3Extend(textIn, names_linear, sortedS0, sortedS12); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 218 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:376:34: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:59: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h: In instantiation of ‘const typename seqan::StoredTupleValue_::Type& seqan::Tuple >::operator[](TPos) const [with TPos = int; TValue = long unsigned int; unsigned int SIZE = 6; typename seqan::StoredTupleValue_::Type = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:124:27: required from ‘bool seqan::CompareSkewDCStream::operator()(const seqan::SkewDCStream&, const seqan::SkewDCStream&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 124 | if (a.i.i3[i] < b.i.i3[i]) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:307:23: required from ‘void seqan::Pipe, seqan::Merger7>::insertStream(unsigned int) [with TInput0 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 307 | if (!streamGreater(inValue[stream],inValue[rank[right]])) break; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:319:4: required from ‘seqan::Pipe, seqan::Merger7>& seqan::Pipe, seqan::Merger7>::operator++() [with TInput0 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 319 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:440:13: required from ‘seqan::Pipe& seqan::Pipe::operator++() [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 440 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_counter.h:105:13: required from ‘seqan::Pipe& seqan::Pipe::operator++() [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >, seqan::Skew7>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 105 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:620:9: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: returning reference to temporary [-Wreturn-local-addr] 171 | return i[k]; | ~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple >, Tuple, Tuple, 6, Tag >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended >, Tuple, Tuple, 6, Tag >, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:446:6: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::Tag >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::Tag >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 446 | ++in.in5; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::Tag >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::Tag >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::Tag >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:446:6: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 446 | ++in.in5; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:498:14: required from ‘void SEQAN_TEST_doAll_Exact_Multiplex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 498 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:557:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘bool seqan::control(Pipe >&, const ControlBeginRead&) [with TInput = Pool >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >; TCompare = _skew3NComp >, Tag >, int>; ControlBeginRead = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pool >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >; TSpec = Namer<_skew3NComp >, Tag >, int> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:251:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 251 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:164:21: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 164 | me.last = *me.in; | ~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h: In instantiation of ‘TResult seqan::_skew3NComp::operator()(const TValue&, const TValue&) const [with TValue = seqan::Pair >, seqan::Tag >; TResult = int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:141:30: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TCompare = seqan::_skew3NComp >, seqan::Tag >, int>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 141 | if (!eof(in) && C(last, *in) != 0) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:251:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 251 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:74:43: warning: taking address of packed member of ‘seqan::Tuple >’ may result in an unaligned pointer value [-Waddress-of-packed-member] 74 | const TStoredValue *sa = a.i2.i; | ~~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: taking address of packed member of ‘seqan::Tuple >’ may result in an unaligned pointer value [-Waddress-of-packed-member] 75 | const TStoredValue *sb = b.i2.i; | ~~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple, Tag >; TSpec = MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender3.h:101:17: required from ‘bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 101 | push(out12, o2); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:269:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 269 | _skew3Extend(textIn, names_linear, sortedS0, sortedS12); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple, Tag >; TSpec = MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender3.h:101:17: required from ‘bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 101 | push(out12, o2); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:269:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 269 | _skew3Extend(textIn, names_linear, sortedS0, sortedS12); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Pair >; TConfig = MapperConfigSize<_skew7NMapSliced >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >; TFunctor = seqan::filterI2 >, long unsigned int>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 153 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_lss.h:415:29: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Pair >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >, Sampler<3> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >, Sampler<3> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >, Sampler<3> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:241:20: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Pair >; TConfig = MapperConfigSize<_skew3NMapLinear >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender3.h:86:38: required from ‘bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 86 | o2.i2[0] = (*nameIn).i2; ++nameIn; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:269:29: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended, Tuple >, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer, seqan::Tuple >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:301:6: required from ‘void seqan::Pipe, seqan::Merger7>::insertStream(unsigned int) [with TInput0 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 301 | ++in.in5; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:319:4: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Pair >; TConfig = MapperConfigSize<_skew3NMapSliced >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple, Tag >; TConfig = MapperConfigSize<_skew3NMapExtended, Tuple, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer, seqan::Tuple, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger3.h:111:17: required from ‘seqan::Pipe, seqan::Merger3>& seqan::Pipe, seqan::Merger3>::operator++() [with TInput0 = seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TInput12 = seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 111 | ++in.in2; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:329:13: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h: In instantiation of ‘const typename seqan::StoredTupleValue_::Type& seqan::Tuple >::operator[](TPos) const [with TPos = unsigned int; TValue = long unsigned int; unsigned int SIZE = 6; typename seqan::StoredTupleValue_::Type = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:191:25: required from ‘TResult seqan::_skew7ExtendComp::operator()(const TValue&, const TValue&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; unsigned int EXT_LENGTH = 3; TResult = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 191 | if (a.i3[i] == b.i3[i]) continue; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:68:21: required from ‘bool seqan::AdaptorCompare2Less::operator()(const typename TCompare::first_argument_type&, const typename TCompare::second_argument_type&) const [with TCompare = seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 3, int>; typename TCompare::first_argument_type = seqan::Triple, seqan::Tuple >, seqan::Tag >; typename TCompare::second_argument_type = seqan::Triple, seqan::Tuple >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 68 | return C(a, b) < 0; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~^~~~~~ /usr/include/c++/14/bits/predefined_ops.h:158:30: required from ‘constexpr bool __gnu_cxx::__ops::_Iter_comp_iter<_Compare>::operator()(_Iterator1, _Iterator2) [with _Iterator1 = seqan::Triple, seqan::Tuple >, seqan::Tag >*; _Iterator2 = seqan::Triple, seqan::Tuple >, seqan::Tag >*; _Compare = seqan::AdaptorCompare2Less, seqan::Tuple >, seqan::Tag >, 3, int> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 158 | { return bool(_M_comp(*__it1, *__it2)); } /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_algo.h:1771:14: required from ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = seqan::Triple, seqan::Tuple >, seqan::Tag >*; _Compare = __gnu_cxx::__ops::_Iter_comp_iter, seqan::Tuple >, seqan::Tag >, 3, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1771 | if (__comp(__i, __first)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_algo.h:1811:25: required from ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = seqan::Triple, seqan::Tuple >, seqan::Tag >*; _Compare = __gnu_cxx::__ops::_Iter_comp_iter, seqan::Tuple >, seqan::Tag >, 3, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1811 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_algo.h:1902:31: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: returning reference to temporary [-Wreturn-local-addr] 171 | return i[k]; | ~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h: In instantiation of ‘const typename seqan::StoredTupleValue_::Type& seqan::Tuple >::operator[](TPos) const [with TPos = unsigned int; TValue = long unsigned int; unsigned int SIZE = 4; typename seqan::StoredTupleValue_::Type = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:191:25: required from ‘TResult seqan::_skew7ExtendComp::operator()(const TValue&, const TValue&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; unsigned int EXT_LENGTH = 1; TResult = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 191 | if (a.i3[i] == b.i3[i]) continue; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:68:21: required from ‘bool seqan::AdaptorCompare2Less::operator()(const typename TCompare::first_argument_type&, const typename TCompare::second_argument_type&) const [with TCompare = seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 1, int>; typename TCompare::first_argument_type = seqan::Triple, seqan::Tuple >, seqan::Tag >; typename TCompare::second_argument_type = seqan::Triple, seqan::Tuple >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 68 | return C(a, b) < 0; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~^~~~~~ /usr/include/c++/14/bits/predefined_ops.h:158:30: required from ‘constexpr bool __gnu_cxx::__ops::_Iter_comp_iter<_Compare>::operator()(_Iterator1, _Iterator2) [with _Iterator1 = seqan::Triple, seqan::Tuple >, seqan::Tag >*; _Iterator2 = seqan::Triple, seqan::Tuple >, seqan::Tag >*; _Compare = seqan::AdaptorCompare2Less, seqan::Tuple >, seqan::Tag >, 1, int> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 158 | { return bool(_M_comp(*__it1, *__it2)); } /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~^~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_algo.h:1771:14: required from ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = seqan::Triple, seqan::Tuple >, seqan::Tag >*; _Compare = __gnu_cxx::__ops::_Iter_comp_iter, seqan::Tuple >, seqan::Tag >, 1, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 1771 | if (__comp(__i, __first)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_algo.h:1811:25: required from ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = seqan::Triple, seqan::Tuple >, seqan::Tag >*; _Compare = __gnu_cxx::__ops::_Iter_comp_iter, seqan::Tuple >, seqan::Tag >, 1, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 1811 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_algo.h:1902:31: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: returning reference to temporary [-Wreturn-local-addr] 171 | return i[k]; | ~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h: In instantiation of ‘const typename seqan::StoredTupleValue_::Type& seqan::Tuple >::operator[](TPos) const [with TPos = unsigned int; TValue = long unsigned int; unsigned int SIZE = 5; typename seqan::StoredTupleValue_::Type = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:191:25: required from ‘TResult seqan::_skew7ExtendComp::operator()(const TValue&, const TValue&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; unsigned int EXT_LENGTH = 2; TResult = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 191 | if (a.i3[i] == b.i3[i]) continue; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:68:21: required from ‘bool seqan::AdaptorCompare2Less::operator()(const typename TCompare::first_argument_type&, const typename TCompare::second_argument_type&) const [with TCompare = seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 2, int>; typename TCompare::first_argument_type = seqan::Triple, seqan::Tuple >, seqan::Tag >; typename TCompare::second_argument_type = seqan::Triple, seqan::Tuple >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 68 | return C(a, b) < 0; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~^~~~~~ /usr/include/c++/14/bits/predefined_ops.h:158:30: required from ‘constexpr bool __gnu_cxx::__ops::_Iter_comp_iter<_Compare>::operator()(_Iterator1, _Iterator2) [with _Iterator1 = seqan::Triple, seqan::Tuple >, seqan::Tag >*; _Iterator2 = seqan::Triple, seqan::Tuple >, seqan::Tag >*; _Compare = seqan::AdaptorCompare2Less, seqan::Tuple >, seqan::Tag >, 2, int> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 158 | { return bool(_M_comp(*__it1, *__it2)); } /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~^~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_algo.h:1771:14: required from ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = seqan::Triple, seqan::Tuple >, seqan::Tag >*; _Compare = __gnu_cxx::__ops::_Iter_comp_iter, seqan::Tuple >, seqan::Tag >, 2, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 1771 | if (__comp(__i, __first)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_algo.h:1811:25: required from ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = seqan::Triple, seqan::Tuple >, seqan::Tag >*; _Compare = __gnu_cxx::__ops::_Iter_comp_iter, seqan::Tuple >, seqan::Tag >, 2, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 1811 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_algo.h:1902:31: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:284:14: required from ‘void SEQAN_TEST_findExactIndex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 284 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_demultiplex.cpp:551:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: returning reference to temporary [-Wreturn-local-addr] 171 | return i[k]; | ~^ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:64: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h: In member function ‘void seqan::SequenceStreamImpl_::_guessFileTypeAndFormatForReadingAndInitialize()’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:310:25: warning: this statement may fall through [-Wimplicit-fallthrough=] 310 | _fileFormat = this->_checkFormat(*_istreamReader); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:313:9: note: here 313 | case SeqIOFileType_::FILE_TYPE_AUTO: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h: In function ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:142:117: warning: this statement may fall through [-Wimplicit-fallthrough=] 142 | /* 6 */ cp___(o6,0, *textIn); ++textIn; o6.i1 = p--; | ~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:144:9: note: here 144 | case 5: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:145:118: warning: this statement may fall through [-Wimplicit-fallthrough=] 145 | /* 5 */ cp___(o5,0,cp___(o6,1, *textIn)); ++textIn; o5.i1 = p--; | ~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:147:9: note: here 147 | case 4: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:149:103: warning: this statement may fall through [-Wimplicit-fallthrough=] 149 | cp___(o4,0,cp___(o5,1,cp___(o6,2, *textIn))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:151:9: note: here 151 | case 3: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:152:119: warning: this statement may fall through [-Wimplicit-fallthrough=] 152 | /* 3 */ cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))); ++textIn; o3.i1 = p--; | ~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:154:9: note: here 154 | case 2: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:156:105: warning: this statement may fall through [-Wimplicit-fallthrough=] 156 | cp___(o2,0,cp___(o3,1,cp___(o4,2,cp___(o5,3,cp___(o6,4, *textIn))))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:158:9: note: here 158 | case 1: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h: In function ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 6, Tag >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 6, Tag >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 4, Tag >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, Tag >, Tag >, SorterSpec >, Tuple, Tuple, 5, Tag >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, Tag >, Tag >, MapperSpec >, Tuple, Tuple, 6, Tag >, Tag >, long unsigned int>, long unsigned int, File > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:395:130: warning: this statement may fall through [-Wimplicit-fallthrough=] 395 | /* 6 */ cp___(o6,0, *textIn); ++textIn; o6.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:397:25: note: here 397 | case 5: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:398:131: warning: this statement may fall through [-Wimplicit-fallthrough=] 398 | /* 5 */ cp___(o5,0,cp___(o6,1, *textIn)); ++textIn; o5.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:400:25: note: here 400 | case 4: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:402:162: warning: this statement may fall through [-Wimplicit-fallthrough=] 402 | cp___(o4,0,cp___(o5,1,cp___(o6,2, *textIn))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:404:25: note: here 404 | case 3: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:405:132: warning: this statement may fall through [-Wimplicit-fallthrough=] 405 | /* 3 */ cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))); ++textIn; o3.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:407:25: note: here 407 | case 2: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:409:138: warning: this statement may fall through [-Wimplicit-fallthrough=] 409 | cp___(o2,0,cp___(o3,1,cp___(o4,2,cp___(o5,3,cp___(o6,4, *textIn))))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:411:25: note: here 411 | case 1: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h: In function ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:395:130: warning: this statement may fall through [-Wimplicit-fallthrough=] 395 | /* 6 */ cp___(o6,0, *textIn); ++textIn; o6.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:397:25: note: here 397 | case 5: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:398:131: warning: this statement may fall through [-Wimplicit-fallthrough=] 398 | /* 5 */ cp___(o5,0,cp___(o6,1, *textIn)); ++textIn; o5.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:400:25: note: here 400 | case 4: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:402:162: warning: this statement may fall through [-Wimplicit-fallthrough=] 402 | cp___(o4,0,cp___(o5,1,cp___(o6,2, *textIn))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:404:25: note: here 404 | case 3: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:405:132: warning: this statement may fall through [-Wimplicit-fallthrough=] 405 | /* 3 */ cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))); ++textIn; o3.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:407:25: note: here 407 | case 2: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:409:138: warning: this statement may fall through [-Wimplicit-fallthrough=] 409 | cp___(o2,0,cp___(o3,1,cp___(o4,2,cp___(o5,3,cp___(o6,4, *textIn))))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:411:25: note: here 411 | case 1: | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h: In function ‘seqan::ClassTest::StaticData::_computePathToRoot()’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:694:16: warning: ‘strncpy’ output truncated copying between 0 and 73 bytes from a string of length 78 [-Wstringop-truncation] 694 | strncpy(&buffer[0], file, pos); | ^ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 82%] Linking CXX executable ../../../bin/test_sflex_demultiplex cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_sflex_demultiplex.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/test_sflex_demultiplex.dir/test_demultiplex.cpp.o -o ../../../bin/test_sflex_demultiplex -lrt -L/usr/lib64 -lz -L/usr/lib64 -lbz2 In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:423:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 82%] Built target test_sflex_demultiplex make -f extras/apps/seqan_flexbar/CMakeFiles/test_sflex_trimming.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/test_sflex_trimming.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar/CMakeFiles/test_sflex_trimming.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/seqan_flexbar/CMakeFiles/test_sflex_trimming.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/test_sflex_trimming.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 82%] Building CXX object extras/apps/seqan_flexbar/CMakeFiles/test_sflex_trimming.dir/test_trimming.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar && /usr/bin/g++ -DSEQAN_DATE=\"\" -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/seqan_flexbar/CMakeFiles/test_sflex_trimming.dir/test_trimming.cpp.o -MF CMakeFiles/test_sflex_trimming.dir/test_trimming.cpp.o.d -o CMakeFiles/test_sflex_trimming.dir/test_trimming.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_trimming.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/stream.h:86, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_trimming.cpp:48: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_trimming.cpp:46: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/fai_index.h:40, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:83: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/read_fasta_fastq.h:262:12: required from ‘int seqan::_clearAndReserveMemory(TIdString&, TSeqString&, RecordReader >&, const TTag&) [with TIdString = String >; TSeqString = String >; TFile = String >; TSpec = Tag; TTag = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 262 | reserve(seq, seqLength, Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/read_fasta_fastq.h:557:37: required from ‘int seqan::readRecord(TIdString&, TSeqString&, RecordReader&, const Fasta&) [with TIdString = String >; TSeqString = String >; TFile = String >; TPass = DoublePass >; Fasta = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 557 | int res = _clearAndReserveMemory(meta, seq, reader, Fasta()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:501:40: required from ‘int seqan::SequenceStreamImpl_::readRecord(TId&, TSequence&, const TFormatTag&) [with TId = seqan::String >; TSequence = seqan::String >; TFormatTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 501 | res = seqan::readRecord(id, seq, *_mmapReaderDoublePass, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream.h:697:38: required from ‘int seqan::readRecord(TId&, TSequence&, SequenceStream&) [with TId = String >; TSequence = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 697 | res = seqIO._impl->readRecord(id, seq, Fasta()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_trimming.cpp:150:24: required from ‘void SEQAN_TEST_sliding_window_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 150 | if (seqan::readRecord(id, seq, inStream) == 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_trimming.cpp:218:5: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1444:21: required from ‘void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1444 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1465:31: required from ‘void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1465 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:849:31: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 849 | arrayConstructMove(old_array, old_array + start, seq_array); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: required from ‘typename seqan::Size >::Type seqan::_clearSpace(String&, TSize, TPosition, TPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long unsigned int; TPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1014 | return ClearSpaceStringBase_ >::_clearSpace_(me, size, pos_begin, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1048:30: required from ‘typename seqan::Size >::Type seqan::resizeSpace(String&, TSize, TBeginPosition, TEndPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = int; TBeginPosition = unsigned int; TEndPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1048 | TSize_ ret_ = _clearSpace( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^ 1049 | me, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~ 1050 | static_cast(size), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 1051 | static_cast(pos_begin), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1052 | static_cast(pos_end), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1053 | tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2212:23: required from ‘TSize seqan::resizeSpace(T&, TSize, TBeginPosition, TEndPosition) [with T = String >; TSize = int; TBeginPosition = unsigned int; TEndPosition = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2212 | return resizeSpace(me, size, pos_begin, pos_end, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2267:16: required from ‘void seqan::erase(T&, TBeginPosition, TEndPosition) [with T = String >; TBeginPosition = unsigned int; TEndPosition = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2267 | resizeSpace(me, 0, pos, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/read_trimming.h:219:7: required from ‘unsigned int trimRead(TSeq&, unsigned int, const TSpec&) [with TSeq = seqan::String >; TSpec = Mean]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 219 | erase(seq, cut_pos, length(seq)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_trimming.cpp:153:27: required from ‘void SEQAN_TEST_sliding_window_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 153 | unsigned res = trimRead(seq, 20, m); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_trimming.cpp:218:5: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1589:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1589 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveBackwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1641:30: required from ‘void seqan::arrayMoveBackward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1641 | _arrayMoveBackwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1213:26: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = SimpleType*; TSource1 = SimpleType*; TSource2 = SimpleType*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1213 | arrayMoveBackward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1660:14: required from ‘void seqan::_arrayClearSpacePointer(TValue*, size_t, size_t, size_t, const True&) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1660 | arrayMove(array_begin + keep_from, array_begin + array_length, array_begin + move_to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1681:28: required from ‘void seqan::arrayClearSpace(TValue*, size_t, size_t, size_t) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1681 | _arrayClearSpacePointer(array_begin, array_length, keep_from, move_to, typename IsSimple::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:856:28: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1048:30: required from ‘typename seqan::Size >::Type seqan::resizeSpace(String&, TSize, TBeginPosition, TEndPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = int; TBeginPosition = unsigned int; TEndPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1048 | TSize_ ret_ = _clearSpace( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^ 1049 | me, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~ 1050 | static_cast(size), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 1051 | static_cast(pos_begin), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1052 | static_cast(pos_end), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1053 | tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2212:23: required from ‘TSize seqan::resizeSpace(T&, TSize, TBeginPosition, TEndPosition) [with T = String >; TSize = int; TBeginPosition = unsigned int; TEndPosition = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2212 | return resizeSpace(me, size, pos_begin, pos_end, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2267:16: required from ‘void seqan::erase(T&, TBeginPosition, TEndPosition) [with T = String >; TBeginPosition = unsigned int; TEndPosition = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2267 | resizeSpace(me, 0, pos, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/read_trimming.h:219:7: required from ‘unsigned int trimRead(TSeq&, unsigned int, const TSpec&) [with TSeq = seqan::String >; TSpec = Mean]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 219 | erase(seq, cut_pos, length(seq)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_trimming.cpp:153:27: required from ‘void SEQAN_TEST_sliding_window_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 153 | unsigned res = trimRead(seq, 20, m); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_trimming.cpp:218:5: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1621:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1621 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:64: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h: In member function ‘void seqan::SequenceStreamImpl_::_guessFileTypeAndFormatForReadingAndInitialize()’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:310:25: warning: this statement may fall through [-Wimplicit-fallthrough=] 310 | _fileFormat = this->_checkFormat(*_istreamReader); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:313:9: note: here 313 | case SeqIOFileType_::FILE_TYPE_AUTO: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h: In function ‘seqan::ClassTest::StaticData::_computePathToRoot()’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:694:16: warning: ‘strncpy’ output truncated copying between 0 and 73 bytes from a string of length 78 [-Wstringop-truncation] 694 | strncpy(&buffer[0], file, pos); | ^ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 83%] Linking CXX executable ../../../bin/test_sflex_trimming cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_sflex_trimming.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/test_sflex_trimming.dir/test_trimming.cpp.o -o ../../../bin/test_sflex_trimming -lrt -L/usr/lib64 -lz -L/usr/lib64 -lbz2 make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 83%] Built target test_sflex_trimming make -f extras/apps/seqan_flexbar/CMakeFiles/test_sflex_adapter.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/test_sflex_adapter.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar/CMakeFiles/test_sflex_adapter.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/seqan_flexbar/CMakeFiles/test_sflex_adapter.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/test_sflex_adapter.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 85%] Building CXX object extras/apps/seqan_flexbar/CMakeFiles/test_sflex_adapter.dir/test_adapter.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar && /usr/bin/g++ -DSEQAN_DATE=\"\" -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/seqan_flexbar/CMakeFiles/test_sflex_adapter.dir/test_adapter.cpp.o -MF CMakeFiles/test_sflex_adapter.dir/test_adapter.cpp.o.d -o CMakeFiles/test_sflex_adapter.dir/test_adapter.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_adapter.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/stream.h:86, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_adapter.cpp:49: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_adapter.cpp:47: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/fai_index.h:40, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:83: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_adapter.cpp:51: /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/adapter_trimming.h: In instantiation of ‘unsigned int stripPair(TSeq&, TSeq&) [with TSeq = seqan::String >]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_adapter.cpp:224:29: required from ‘void SEQAN_TEST_strip_pair_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 224 | unsigned insert = stripPair(seq1,seq2); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_adapter.cpp:245:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/adapter_trimming.h:297:16: warning: implicitly-declared ‘seqan::Align > >::Align(const seqan::Align > >&)’ is deprecated [-Wdeprecated-copy] 297 | TAlign align = ret.i2; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:89: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align > >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::String >; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:131:16: required from ‘seqan::String >::String(const seqan::String >&) [with TValue = seqan::SimpleType; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 131 | reserve(*this, std::min(capacity(source), computeGenerousCapacity(source, length(source))), Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_adapter.cpp:59:15: required from ‘void SEQAN_TEST_get_overlap_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 59 | TSequence seq1 = "AAAAAAAAA"; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_adapter.cpp:239:5: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1444:21: required from ‘void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1444 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1465:31: required from ‘void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1465 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:849:31: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 849 | arrayConstructMove(old_array, old_array + start, seq_array); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: required from ‘typename seqan::Size >::Type seqan::_clearSpace(String&, TSize, TPosition, TPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long unsigned int; TPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1014 | return ClearSpaceStringBase_ >::_clearSpace_(me, size, pos_begin, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1048:30: required from ‘typename seqan::Size >::Type seqan::resizeSpace(String&, TSize, TBeginPosition, TEndPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = int; TBeginPosition = long unsigned int; TEndPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1048 | TSize_ ret_ = _clearSpace( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^ 1049 | me, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~ 1050 | static_cast(size), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 1051 | static_cast(pos_begin), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1052 | static_cast(pos_end), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1053 | tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2212:23: required from ‘TSize seqan::resizeSpace(T&, TSize, TBeginPosition, TEndPosition) [with T = String >; TSize = int; TBeginPosition = long unsigned int; TEndPosition = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2212 | return resizeSpace(me, size, pos_begin, pos_end, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2267:16: required from ‘void seqan::erase(T&, TBeginPosition, TEndPosition) [with T = String >; TBeginPosition = long unsigned int; TEndPosition = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2267 | resizeSpace(me, 0, pos, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/adapter_trimming.h:538:15: required from ‘unsigned int stripAdapter(TSeq&, TAdapter&, const TSpec&) [with TSeq = seqan::String >; TAdapter = seqan::String, seqan::Alloc<> >; TSpec = Auto]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 538 | seqan::erase(seq, length(seq) - overlap, length(seq)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_adapter.cpp:198:28: required from ‘void SEQAN_TEST_strip_adapter_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 198 | int removed = stripAdapter(seq, ada, Auto()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_adapter.cpp:243:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1589:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1589 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveBackwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1641:30: required from ‘void seqan::arrayMoveBackward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1641 | _arrayMoveBackwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1213:26: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = SimpleType*; TSource1 = SimpleType*; TSource2 = SimpleType*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1213 | arrayMoveBackward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1660:14: required from ‘void seqan::_arrayClearSpacePointer(TValue*, size_t, size_t, size_t, const True&) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1660 | arrayMove(array_begin + keep_from, array_begin + array_length, array_begin + move_to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1681:28: required from ‘void seqan::arrayClearSpace(TValue*, size_t, size_t, size_t) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1681 | _arrayClearSpacePointer(array_begin, array_length, keep_from, move_to, typename IsSimple::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:856:28: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1048:30: required from ‘typename seqan::Size >::Type seqan::resizeSpace(String&, TSize, TBeginPosition, TEndPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = int; TBeginPosition = long unsigned int; TEndPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1048 | TSize_ ret_ = _clearSpace( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^ 1049 | me, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~ 1050 | static_cast(size), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 1051 | static_cast(pos_begin), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1052 | static_cast(pos_end), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1053 | tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2212:23: required from ‘TSize seqan::resizeSpace(T&, TSize, TBeginPosition, TEndPosition) [with T = String >; TSize = int; TBeginPosition = long unsigned int; TEndPosition = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2212 | return resizeSpace(me, size, pos_begin, pos_end, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2267:16: required from ‘void seqan::erase(T&, TBeginPosition, TEndPosition) [with T = String >; TBeginPosition = long unsigned int; TEndPosition = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2267 | resizeSpace(me, 0, pos, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/adapter_trimming.h:538:15: required from ‘unsigned int stripAdapter(TSeq&, TAdapter&, const TSpec&) [with TSeq = seqan::String >; TAdapter = seqan::String, seqan::Alloc<> >; TSpec = Auto]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 538 | seqan::erase(seq, length(seq) - overlap, length(seq)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_adapter.cpp:198:28: required from ‘void SEQAN_TEST_strip_adapter_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 198 | int removed = stripAdapter(seq, ada, Auto()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_adapter.cpp:243:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1621:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1621 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:131:16: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = String >; typename Reference > >::Type = String >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gaps_array.h:368:17: required from ‘typename seqan::Source > >::Type& seqan::source(Gaps >&) [with TSequence = String >; typename Source > >::Type = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 368 | return value(gaps._source); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/adapter_trimming.h:230:22: required from ‘unsigned int getOverlap(TAlign&) [with TAlign = seqan::Align > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 230 | return length(source(row1)) - countTotalGaps(row2); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/adapter_trimming.h:533:26: required from ‘unsigned int stripAdapter(TSeq&, TAdapter&, const TSpec&) [with TSeq = seqan::String >; TAdapter = seqan::String, seqan::Alloc<> >; TSpec = Auto]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 533 | int overlap = getOverlap(ret.i2); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_adapter.cpp:198:28: required from ‘void SEQAN_TEST_strip_adapter_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 198 | int removed = stripAdapter(seq, ada, Auto()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_adapter.cpp:243:2: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 85%] Linking CXX executable ../../../bin/test_sflex_adapter cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_sflex_adapter.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/test_sflex_adapter.dir/test_adapter.cpp.o -o ../../../bin/test_sflex_adapter -lrt -L/usr/lib64 -lz -L/usr/lib64 -lbz2 make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 85%] Built target test_sflex_adapter make -f extras/apps/seqan_flexbar/CMakeFiles/test_sflex_general_processing.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/test_sflex_general_processing.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar/CMakeFiles/test_sflex_general_processing.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/seqan_flexbar/CMakeFiles/test_sflex_general_processing.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/test_sflex_general_processing.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 85%] Building CXX object extras/apps/seqan_flexbar/CMakeFiles/test_sflex_general_processing.dir/test_general_processing.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar && /usr/bin/g++ -DSEQAN_DATE=\"\" -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/seqan_flexbar/CMakeFiles/test_sflex_general_processing.dir/test_general_processing.cpp.o -MF CMakeFiles/test_sflex_general_processing.dir/test_general_processing.cpp.o.d -o CMakeFiles/test_sflex_general_processing.dir/test_general_processing.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_general_processing.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/stream.h:86, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/general_processing.h:54, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_general_processing.cpp:52: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_general_processing.cpp:47: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /usr/include/c++/14/bits/stl_function.h:117:12: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /usr/include/c++/14/bits/stl_function.h:117:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1444:21: required from ‘void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’ /usr/include/c++/14/bits/stl_function.h:117:12: note: 1444 | arrayMoveForward(source_begin, source_end, target_begin); /usr/include/c++/14/bits/stl_function.h:117:12: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1465:31: required from ‘void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /usr/include/c++/14/bits/stl_function.h:117:12: note: 1465 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /usr/include/c++/14/bits/stl_function.h:117:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:849:31: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String, seqan::Alloc<> >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /usr/include/c++/14/bits/stl_function.h:117:12: note: 849 | arrayConstructMove(old_array, old_array + start, seq_array); /usr/include/c++/14/bits/stl_function.h:117:12: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: required from ‘typename seqan::Size >::Type seqan::_clearSpace(String&, TSize, TPosition, TPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long unsigned int; TPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /usr/include/c++/14/bits/stl_function.h:117:12: note: 1014 | return ClearSpaceStringBase_ >::_clearSpace_(me, size, pos_begin, pos_end); /usr/include/c++/14/bits/stl_function.h:117:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1048:30: required from ‘typename seqan::Size >::Type seqan::resizeSpace(String&, TSize, TBeginPosition, TEndPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = int; TBeginPosition = int; TEndPosition = unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /usr/include/c++/14/bits/stl_function.h:117:12: note: 1048 | TSize_ ret_ = _clearSpace( /usr/include/c++/14/bits/stl_function.h:117:12: note: | ~~~~~~~~~~~^ 1049 | me, /usr/include/c++/14/bits/stl_function.h:117:12: note: | ~~~ 1050 | static_cast(size), /usr/include/c++/14/bits/stl_function.h:117:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 1051 | static_cast(pos_begin), /usr/include/c++/14/bits/stl_function.h:117:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1052 | static_cast(pos_end), /usr/include/c++/14/bits/stl_function.h:117:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1053 | tag); /usr/include/c++/14/bits/stl_function.h:117:12: note: | ~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2212:23: required from ‘TSize seqan::resizeSpace(T&, TSize, TBeginPosition, TEndPosition) [with T = String, Alloc<> >; TSize = int; TBeginPosition = int; TEndPosition = unsigned int]’ /usr/include/c++/14/bits/stl_function.h:117:12: note: 2212 | return resizeSpace(me, size, pos_begin, pos_end, typename DefaultOverflowExplicit::Type()); /usr/include/c++/14/bits/stl_function.h:117:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2267:16: required from ‘void seqan::erase(T&, TBeginPosition, TEndPosition) [with T = String, Alloc<> >; TBeginPosition = int; TEndPosition = unsigned int]’ /usr/include/c++/14/bits/stl_function.h:117:12: note: 2267 | resizeSpace(me, 0, pos, pos_end); /usr/include/c++/14/bits/stl_function.h:117:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/general_processing.h:604:22: required from ‘void preTrim(TSeqs&, TIds&, unsigned int, unsigned int, unsigned int, GeneralStats&) [with TSeqs = seqan::StringSet, seqan::Alloc<> > >; TIds = seqan::StringSet > >]’ /usr/include/c++/14/bits/stl_function.h:117:12: note: 604 | erase(seqs[i], 0, head); /usr/include/c++/14/bits/stl_function.h:117:12: note: | ~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_general_processing.cpp:446:12: required from ‘void SEQAN_TEST_preTrim_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /usr/include/c++/14/bits/stl_function.h:117:12: note: 446 | preTrim(seqs2, ids2, 3, 3, 4, stats); /usr/include/c++/14/bits/stl_function.h:117:12: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_general_processing.cpp:630:5: required from here /usr/include/c++/14/bits/stl_function.h:117:12: note: 1960 | SEQAN_TEST_ ## test_name(); \ /usr/include/c++/14/bits/stl_function.h:117:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1589:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1589 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveBackwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1641:30: required from ‘void seqan::arrayMoveBackward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1641 | _arrayMoveBackwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1213:26: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = SimpleType*; TSource1 = SimpleType*; TSource2 = SimpleType*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1213 | arrayMoveBackward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1660:14: required from ‘void seqan::_arrayClearSpacePointer(TValue*, size_t, size_t, size_t, const True&) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1660 | arrayMove(array_begin + keep_from, array_begin + array_length, array_begin + move_to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1681:28: required from ‘void seqan::arrayClearSpace(TValue*, size_t, size_t, size_t) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1681 | _arrayClearSpacePointer(array_begin, array_length, keep_from, move_to, typename IsSimple::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:856:28: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1048:30: required from ‘typename seqan::Size >::Type seqan::resizeSpace(String&, TSize, TBeginPosition, TEndPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = int; TBeginPosition = int; TEndPosition = unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1048 | TSize_ ret_ = _clearSpace( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^ 1049 | me, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~ 1050 | static_cast(size), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 1051 | static_cast(pos_begin), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1052 | static_cast(pos_end), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1053 | tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2212:23: required from ‘TSize seqan::resizeSpace(T&, TSize, TBeginPosition, TEndPosition) [with T = String, Alloc<> >; TSize = int; TBeginPosition = int; TEndPosition = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2212 | return resizeSpace(me, size, pos_begin, pos_end, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2267:16: required from ‘void seqan::erase(T&, TBeginPosition, TEndPosition) [with T = String, Alloc<> >; TBeginPosition = int; TEndPosition = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2267 | resizeSpace(me, 0, pos, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/general_processing.h:604:22: required from ‘void preTrim(TSeqs&, TIds&, unsigned int, unsigned int, unsigned int, GeneralStats&) [with TSeqs = seqan::StringSet, seqan::Alloc<> > >; TIds = seqan::StringSet > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 604 | erase(seqs[i], 0, head); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_general_processing.cpp:446:12: required from ‘void SEQAN_TEST_preTrim_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 446 | preTrim(seqs2, ids2, 3, 3, 4, stats); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_general_processing.cpp:630:5: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1621:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1621 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:131:16: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1481:31: required from ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >, seqan::Alloc<> >; TValue = const char [31]; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1481 | valueConstruct(begin(me, Standard()) + me_length, temp_copy); //??? this should be valueMoveConstruct /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = String, Alloc<> >; TTargetSpec = Alloc<>; TValue = char [31]; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_owner.h:146:16: required from ‘void seqan::appendValue(StringSet >&, const TString2&, Tag) [with TString = String, Alloc<> >; TString2 = char [31]; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 146 | appendValue(me.strings, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = StringSet, Alloc<> > >; TValue = char [31]]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_general_processing.cpp:59:16: required from ‘void SEQAN_TEST_findN_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 59 | appendValue(seqs, "ATGACTGTACACGTGATCGTACGTAGCAGC"); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_general_processing.cpp:625:5: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:131:16: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1481:31: required from ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String >, seqan::Alloc<> >; TValue = const char [7]; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1481 | valueConstruct(begin(me, Standard()) + me_length, temp_copy); //??? this should be valueMoveConstruct /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = String >; TTargetSpec = Alloc<>; TValue = char [7]; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_owner.h:146:16: required from ‘void seqan::appendValue(StringSet >&, const TString2&, Tag) [with TString = String >; TString2 = char [7]; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 146 | appendValue(me.strings, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = StringSet > >; TValue = char [7]]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_general_processing.cpp:335:16: required from ‘void SEQAN_TEST_processN_paired_multiplex_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 335 | appendValue(multiplex, "ACTGTA"); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_general_processing.cpp:629:5: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:131:16: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1481:31: required from ‘static void seqan::AppendValueToString_::appendValue_(T&, TValue&) [with T = seqan::String, seqan::Alloc<> >, seqan::Alloc<> >; TValue = const char [11]; TExpand = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1481 | valueConstruct(begin(me, Standard()) + me_length, temp_copy); //??? this should be valueMoveConstruct /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1500:54: required from ‘void seqan::appendValue(String&, const TValue&, Tag) [with TTargetValue = String, Alloc<> >; TTargetSpec = Alloc<>; TValue = char [11]; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1500 | AppendValueToString_ >::appendValue_(me, _value); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_owner.h:146:16: required from ‘void seqan::appendValue(StringSet >&, const TString2&, Tag) [with TString = String, Alloc<> >; TString2 = char [11]; TExpand = TagGenerous_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 146 | appendValue(me.strings, obj, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:1718:16: required from ‘void seqan::appendValue(T&, const TValue&) [with T = StringSet, Alloc<> > >; TValue = char [11]]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1718 | appendValue(me, _value, typename DefaultOverflowImplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_general_processing.cpp:427:16: required from ‘void SEQAN_TEST_preTrim_test() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 427 | appendValue(seqs, "ACGTAACTGA"); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/test_general_processing.cpp:630:5: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1960 | SEQAN_TEST_ ## test_name(); \ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ [ 87%] Linking CXX executable ../../../bin/test_sflex_general_processing cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_sflex_general_processing.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/test_sflex_general_processing.dir/test_general_processing.cpp.o -o ../../../bin/test_sflex_general_processing -lrt -L/usr/lib64 -lz -L/usr/lib64 -lbz2 make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 87%] Built target test_sflex_general_processing make -f extras/apps/seqan_flexbar/CMakeFiles/seqan_flexlib.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/seqan_flexlib.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar/CMakeFiles/seqan_flexlib.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/seqan_flexbar/CMakeFiles/seqan_flexlib.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/seqan_flexlib.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 87%] Building CXX object extras/apps/seqan_flexbar/CMakeFiles/seqan_flexlib.dir/seqan_flexlib.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar && /usr/bin/g++ -DSEQAN_DATE=\"\" -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/seqan_flexbar/CMakeFiles/seqan_flexlib.dir/seqan_flexlib.cpp.o -MF CMakeFiles/seqan_flexlib.dir/seqan_flexlib.cpp.o.d -o CMakeFiles/seqan_flexlib.dir/seqan_flexlib.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/stream.h:86, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:45, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:56: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:53: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:54, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:38, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/fai_index.h:40, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:83: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:246:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 246 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/gap_anchor.h:256:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:166: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h: In function ‘int seqan::_globalAlignmentScore(const String&, const String&, const MyersBitVector&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:70:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 70 | if (length(seqH) < length(seqV)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/global_alignment_myers_impl.h:74:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 74 | const unsigned int BLOCK_SIZE = BitsPerValue::VALUE; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:174: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h: In function ‘seqan::Pair > seqan::_alignBandedSmithWatermanTrace(LocalAlignmentFinder&, const TSequenceH&, const TSequenceV&, TId, TId, TScore&, TDiagonal, TDiagonal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:409:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 409 | if ((actualCol == 0) || (actualRow == 0)) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/local_alignment_banded_waterman_eggert_impl.h:412:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 412 | if (actualCol < len1) _alignTracePrint(finder.trace, seqH, seqV, id1, actualCol, id2, actualRow, len1 - actualCol, Horizontal); | ^~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:60: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:485:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 485 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:495:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 495 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:505:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 505 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:515:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 515 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:525:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 525 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_align.h:535:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 535 | public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:62: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h: In function ‘void seqan::convertMatchesToGlobalAlignment(FragmentStore&, const TScore&, const TShrinkMatches&)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2357:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2357 | if (alignQualityStoreLengthPre == 0u) | ^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store/store_all.h:2361:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2361 | sortAlignedReads(store.alignedReadStore, SortBeginPos()); | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:62, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:40, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/demultiplex.h:52, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:72: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:45:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:54:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 54 | struct filterI2 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:63:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 63 | struct filterI3 : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:74: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:401:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 401 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:507:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 507 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:78: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:42:48: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 42 | struct MergeStreamComparer : public ::std::binary_function < PageBucket, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:57:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | public ::std::binary_function < | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:257:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 257 | struct insertBucket : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:372:53: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 372 | struct insertBucket : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:45: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_set.h:373:41: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:70: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:404:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 404 | public::std::binary_function // functor for operator> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:744:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 744 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_base.h:760:18: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 760 | public::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:80: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:854:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 854 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:902:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 902 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:970:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 970 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1039:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1039 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1073:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1073 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:1121:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 1121 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2093:39: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2093 | struct _qgramComp : public ::std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_qgram.h:2112:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 2112 | public ::std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:91: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:46:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 46 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_qsort.h:85:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 85 | public ::std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:96: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:98:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 98 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:112:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 112 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:127:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 127 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:144:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:154:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:99: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:110:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 110 | public ::std::binary_function < SkewDCStream, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:143:23: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 143 | public ::std::binary_function < SkewDCStream >, Pack> >, | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:100: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:65:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:99:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 99 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:118:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:132:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 132 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:154:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:175:21: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 175 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:185:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 185 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:103: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:57:43: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:97:21: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 97 | public std::binary_function< | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:141:29: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:109: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:59:42: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:164:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 164 | struct _mapInverseMulti : public std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, KasaiOriginal)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:312:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 312 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:313:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 313 | LCP[isa - 1] = h; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const TText&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:379:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 379 | for(TSize hMax = _min(n - i, n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:380:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 380 | LCP[i] = h | mark; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h: In function ‘void seqan::_createLCPTableRandomAccess(TLCPTable&, const StringSet&, const TSA&, Kasai)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:483:17: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 483 | for(TSize hMax = _min(getValueI2((TPair)dec), n - j); h < hMax && *I == *J; ++I, ++J, ++h) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_lcp.h:484:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 484 | LCP[i] = h | mark; | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:113: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_bwt.h:144:50: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public ::std::unary_function { | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:120: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:585:31: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 585 | public ::std::binary_function< Pair, Pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:128: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h: In function ‘void seqan::_storeWotdChildren(Index > >&, TSize, TSize)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:504:27: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 504 | } else | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_dfi.h:506:33: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 506 | for (TDirSize d = index.sentinelBound - index.sentinelOcc; d != index.sentinelBound; ++d) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:136: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h: At global scope: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/repeat_base.h:149:44: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 149 | struct RepeatLess_ : public ::std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:157: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h: In function ‘typename seqan::Iterator >::Type seqan::_upperBoundLcpe(TText&, TSA&, SearchTreeIterator, TQuery&, TDiff_, TDiff_)’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1498:13: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 1498 | for(; i && ordEqual(*t, convert(*q)); --i, ++t, ++q) ; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1501:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 1501 | if (q == qEnd || t == tEnd || !ordGreater(*t, convert(*q))) { | ^~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp: In function ‘seqan::ArgumentParser initParser()’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:610:10: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 610 | std::auto_ptr argParseBuilder; | ^~~~~~~~ In file included from /usr/include/c++/14/memory:78, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/test_system.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:62, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:54: /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:71: /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/adapter_trimming.h: In instantiation of ‘unsigned int stripPair(TSeq&, TSeq&) [with TSeq = seqan::String >]’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/adapter_trimming.h:411:12: required from ‘unsigned int stripPairBatch(seqan::StringSet >&, seqan::StringSet&, seqan::StringSet >&, seqan::StringSet&, AdapterTrimmingStats&, bool) [with TSeq = seqan::String >; TId = seqan::String >]’ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: 411 | stripPair(read1, read2); /usr/include/c++/14/bits/unique_ptr.h:59:28: note: | ~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:1926:27: required from ‘void adapterTrimmingStage(AdapterTrimmingParams&, TSeqs&, TIds&, TSeqs&, TIds&, bool) [with TSeqs = seqan::String > > >; TIds = seqan::String > > >]’ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: 1926 | stripPairBatch(seqSet1[i], idSet1[i], seqSet2[i], idSet2[i], params.stats, tagOpt); /usr/include/c++/14/bits/unique_ptr.h:59:28: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2726:37: required from here /usr/include/c++/14/bits/unique_ptr.h:59:28: note: 2726 | adapterTrimmingStage(adapterTrimmingParams, seqSet1, idSet1, seqSet2, idSet2, tagOpt); /usr/include/c++/14/bits/unique_ptr.h:59:28: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/adapter_trimming.h:297:16: warning: implicitly-declared ‘seqan::Align >, seqan::Tag >::Align(const seqan::Align >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 297 | TAlign align = ret.i2; | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align.h:89: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: because ‘seqan::Align >, seqan::Tag >’ has user-provided ‘seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::String >; TSpec = seqan::Tag]’ 131 | Align & operator=(Align const & other) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:69, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, const TSource&) [with TTarget = Index, Alloc<> > >, IndexEsa<> >; TSource = Index, Alloc<> > >, IndexEsa<> >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:1020:15: required from ‘void seqan::assignValue(Holder >&, const TSource&) [with TValue = Index, Alloc<> > >, IndexEsa<> >; TSource = Index, Alloc<> > >, IndexEsa<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1020 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:1065:24: required from ‘void seqan::assign(Holder >&, const Holder >&) [with TValue = Index, Alloc<> > >, IndexEsa<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1065 | assignValue(target_, value(source_)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:170:15: required from ‘const seqan::Holder >& seqan::Holder >::operator=(const seqan::Holder >&) [with TValue = seqan::Index, seqan::Alloc<> > >, seqan::IndexEsa<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 170 | assign(*this, source_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index.h:67:8: required from ‘void findAllExactIndex(seqan::String&, const TPrefices&, const TFinder&, TStats&) [with TPrefices = seqan::StringSet > >; TFinder = seqan::Finder, seqan::Alloc<> > >, seqan::IndexEsa<> > >; TStats = DemultiplexStats]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 67 | class Finder< Index, TSpecFinder > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/demultiplex.h:458:19: required from ‘void doAll(seqan::StringSet >&, TMultiplex&, TBarcodes&, TFinder&, DemultiplexStats&, bool) [with TBarcodes = seqan::StringSet, seqan::Alloc<> > >; TMultiplex = seqan::StringSet > >; TFinder = seqan::Finder, seqan::Alloc<> > >, seqan::IndexEsa<> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 458 | findAllExactIndex(matches, multiplex, esaFinder, stats); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:1733:14: required from ‘int demultiplexingStage(DemultiplexingParams&, TSeqsVec&, TIdsVec&, TFinder&, TMap&, GeneralStats&) [with TSeqsVec = seqan::String > > >; TIdsVec = seqan::String > > >; TFinder = seqan::Finder, seqan::Alloc<> > >, seqan::IndexEsa<> > >; TMap = seqan::String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 1733 | doAll(groups, params.multiplex, params.barcodes, esaFinder, params.stats, params.exclude); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2659:40: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: 2659 | if (demultiplexingStage(demultiplexingParams, seqSet, idSet, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2660 | esaFinder, map, generalStats) != 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/align/align_base.h:131:13: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:142:12: warning: implicitly-declared ‘seqan::Index, seqan::Alloc<> > >, seqan::IndexEsa<> >& seqan::Index, seqan::Alloc<> > >, seqan::IndexEsa<> >::operator=(const seqan::Index, seqan::Alloc<> > >, seqan::IndexEsa<> >&)’ is deprecated [-Wdeprecated-copy] 142 | target = source; | ~~~~~~~^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:125: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: because ‘seqan::Index, seqan::Alloc<> > >, seqan::IndexEsa<> >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet, seqan::Alloc<> > >; TSpec = void]’ 548 | Index(Index const &other): | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:56: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: required from ‘void seqan::operator<<(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 826 | assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:110:15: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Alloc<> >; TSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 110 | suffixArray << creator; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:802:19: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 802 | *_cur = *src; | ~~~~~~^~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:55, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:71: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index.h:98: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h: In instantiation of ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Alloc<> >; TSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 108 | creator_t creator(unsigner, stringSetLimits(stringSet)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:347:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 347 | o1.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:357:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 357 | o0.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:361:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | o3.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:365:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 365 | o5.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:369:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 369 | o6.i1 = typename Value::Type, 1>::Type(); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:395:125: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 395 | /* 6 */ cp___(o6,0, *textIn); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:398:126: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 398 | /* 5 */ cp___(o5,0,cp___(o6,1, *textIn)); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:401:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 401 | /* 4 */ o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:405:127: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 405 | /* 3 */ cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:408:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 408 | /* 2 */ o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:412:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 412 | /* 1 */ o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:424:128: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 424 | /* 0 */ cp___(o0,0,cp___(o1,1,cp___(o2,2,cp___(o3,3, *textIn)))); ++textIn; o0.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:426:129: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 426 | /* 6 */ cp___(o0,1,cp___(o1,2,cp___(o2,3,cp___(o3,4, cp___(o6,0, *textIn))))); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:428:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 428 | /* 5 */ cp___(o0,2,cp___(o1,3,cp___(o2,4,cp___(o3,5, cp___(o5,0,cp___(o6,1, *textIn)))))); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:430:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 430 | /* 4 */ o0.i2[0] = o1.i2[1] = o2.i2[2] = o3.i2[2] = o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:435:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 435 | /* 3 */ cp___(o0,4,cp___(o1,5, cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:437:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 437 | /* 2 */ o0.i2[1] = o1.i2[2] = o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:441:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 441 | /* 1 */ o0.i2[2] = o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:454:128: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 454 | /* 0 */ cp___(o0,0,cp___(o1,1,cp___(o2,2,cp___(o3,3, *textIn)))); ++textIn; o0.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:456:129: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 456 | /* 6 */ cp___(o0,1,cp___(o1,2,cp___(o2,3,cp___(o3,4, cp___(o6,0, *textIn))))); ++textIn; o6.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:458:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 458 | /* 5 */ cp___(o0,2,cp___(o1,3,cp___(o2,4,cp___(o3,5, cp___(o5,0,cp___(o6,1, *textIn)))))); ++textIn; o5.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:460:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 460 | /* 4 */ o0.i2[0] = o1.i2[1] = o2.i2[2] = o3.i2[2] = o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:465:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 465 | /* 3 */ cp___(o0,4,cp___(o1,5, cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))))); ++textIn; o3.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:467:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 467 | /* 2 */ o0.i2[1] = o1.i2[2] = o2.i2[0] = o3.i2[0] = o4.i2[1] = o5.i2[1] = o6.i2[1] = (*nameIn2).i2; ++nameIn2; o2.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:471:130: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 471 | /* 1 */ o0.i2[2] = o1.i2[0] = o2.i2[1] = o3.i2[1] = o4.i2[2] = o5.i2[2] = o6.i2[2] = (*nameIn1).i2; ++nameIn1; o1.i1 = p; ++p; | ~~~~~~^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/read_fasta_fastq.h:262:12: required from ‘int seqan::_clearAndReserveMemory(TIdString&, TSeqString&, RecordReader >&, const TTag&) [with TIdString = String >; TSeqString = String >; TFile = String >; TSpec = Tag; TTag = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 262 | reserve(seq, seqLength, Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/read_fasta_fastq.h:557:37: required from ‘int seqan::readRecord(TIdString&, TSeqString&, RecordReader&, const Fasta&) [with TIdString = String >; TSeqString = String >; TFile = String >; TPass = DoublePass >; Fasta = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 557 | int res = _clearAndReserveMemory(meta, seq, reader, Fasta()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:653:49: required from ‘int seqan::SequenceStreamImpl_::readBatch(seqan::StringSet&, seqan::StringSet&, unsigned int, const TFormatTag&) [with TId = seqan::String >; TIdSpec = seqan::Owner<>; TSequence = seqan::String >; TSeqSpec = seqan::Owner<>; TFormatTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 653 | if ((res = seqan::readRecord(id, seq, *_mmapReaderDoublePass, tag)) != 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream.h:819:37: required from ‘int seqan::readBatch(StringSet&, StringSet&, SequenceStream&, unsigned int) [with TId = String >; TIdSpec = Owner<>; TSequence = String >; TSeqSpec = Owner<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 819 | res = seqIO._impl->readBatch(ids, seqs, num, Fasta()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:1225:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1225 | if (seqan::readBatch(ids, seqs, seqStream, records) != 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/read_fasta_fastq.h:262:12: required from ‘int seqan::_clearAndReserveMemory(TIdString&, TSeqString&, RecordReader >&, const TTag&) [with TIdString = String >; TSeqString = String, Alloc<> >; TFile = String >; TSpec = Tag; TTag = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 262 | reserve(seq, seqLength, Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/read_fasta_fastq.h:557:37: required from ‘int seqan::readRecord(TIdString&, TSeqString&, RecordReader&, const Fasta&) [with TIdString = String >; TSeqString = String, Alloc<> >; TFile = String >; TPass = DoublePass >; Fasta = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 557 | int res = _clearAndReserveMemory(meta, seq, reader, Fasta()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:823:49: required from ‘int seqan::SequenceStreamImpl_::readAll(seqan::StringSet&, seqan::StringSet&, const TFormatTag&) [with TId = seqan::String >; TIdSpec = seqan::Owner<>; TSequence = seqan::String, seqan::Alloc<> >; TSeqSpec = seqan::Owner<>; TFormatTag = seqan::Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 823 | if ((res = seqan::readRecord(id, seq, *_mmapReaderDoublePass, tag)) != 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream.h:940:35: required from ‘int seqan::readAll(StringSet&, StringSet&, SequenceStream&) [with TId = String >; TIdSpec = Owner<>; TSequence = String, Alloc<> >; TSeqSpec = Owner<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 940 | res = seqIO._impl->readAll(ids, seqs, Fasta()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:1254:23: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1254 | if (seqan::readAll(params.barcodeIds, params.barcodes, bcStream) != 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::setHost(PairIncrementer_&, const TLimits2&) [with TPair = Pair >; TLimits = String >; TLimits2 = String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:382:10: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 382 | setHost(p, limits); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Alloc<> >; TSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 108 | creator_t creator(unsigner, stringSetLimits(stringSet)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:1032:16: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1032 | me.pos = TPair(0, 0); | ~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::pop(Pipe&, TValue&) [with TInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >, Skew7>; TSpec = Counter; TValue = Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_separator7.h:62:7: required from ‘void seqan::_skew7SeparateSlices(TInput&, const TFunctor&, TOut1&, TOut2&, TOut4&) [with TInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >, Skew7>, Counter>; TFunctor = _skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > >; TOut1 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut2 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut4 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 62 | pop(in, i); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:386:26: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 386 | _skew7SeparateSlices( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^ 387 | renamer, func_slice, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~ 388 | names_S1, names_S2, names_S4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: required from ‘seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 294 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:108:13: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Alloc<> >; TSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 108 | creator_t creator(unsigner, stringSetLimits(stringSet)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:619:14: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 619 | Ref_ = *me; | ~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:218:12: required from ‘void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Alloc<> >; TSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 218 | struct Pipe< TInput, Multi > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:58: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:116, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:55: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_base.h: In instantiation of ‘void seqan::posLocalize(TResult&, const Pair&, const String&) [with TResult = Pair >; TSize = long unsigned int; TSpec = Alloc<>; T1 = long unsigned int; T2 = long unsigned int; TPack = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_base.h:768:16: required from ‘typename seqan::Suffix::Type seqan::suffix(const StringSet&, const TPosition&) [with TString = String, Alloc<> >; TSpec = Owner<>; TPosition = Pair >; typename Suffix::Type = Segment, Alloc<> >, SuffixSegment>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 768 | posLocalize(lPos, pos, stringSetLimits(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:803:25: required from ‘seqan::Pair >::Type> seqan::_equalRangeSA(TText&, SearchTreeIterator, TQuery&, typename Difference::Type) [with TText = const StringSet, Alloc<> > >; TSA = const String >, Alloc<> >; TSpec = SortedList; TQuery = const String >; typename Iterator >::Type = const Pair >*; typename Difference::Type = long int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 803 | TSuffix suf = suffix(text, *treeIter); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:897:23: required from ‘seqan::Pair >::Type> seqan::equalRangeSAIterator(const TText&, const TSA&, const TQuery&) [with TText = StringSet, Alloc<> > >; TSA = String >, Alloc<> >; TQuery = String >; typename Iterator >::Type = const Pair >*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 897 | return _equalRangeSA(text, SearchTreeIterator(sa), query); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index_esa.h:1930:38: required from ‘void seqan::_findFirstIndex(Finder, TSpecFinder>&, const TPattern&, EsaFindMlr) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecFinder = const Tag; TPattern = String >; EsaFindMlr = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1930 | finder.range = equalRangeSAIterator(indexText(index), indexSA(index), pattern); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index.h:292:19: required from ‘bool seqan::find(Finder, TSpecFinder>&, const TPattern&) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecFinder = const Tag; TPattern = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 292 | _findFirstIndex(finder, needle(pattern), TSpecFinder()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/demultiplex.h:274:10: required from ‘int findExactIndex(const TPrefix&, TFinder&) [with TPrefix = seqan::String >; TFinder = seqan::Finder, seqan::Alloc<> > >, seqan::IndexEsa<> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 274 | if (find(finder, prefix)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/demultiplex.h:326:33: required from ‘void findAllExactIndex(seqan::String&, const TPrefices&, const TFinder&, TStats&) [with TPrefices = seqan::StringSet > >; TFinder = seqan::Finder, seqan::Alloc<> > >, seqan::IndexEsa<> > >; TStats = DemultiplexStats]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 326 | int hit = findExactIndex(prefices[i], finderSet[tid]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/demultiplex.h:458:19: required from ‘void doAll(seqan::StringSet >&, TMultiplex&, TBarcodes&, TFinder&, DemultiplexStats&, bool) [with TBarcodes = seqan::StringSet, seqan::Alloc<> > >; TMultiplex = seqan::StringSet > >; TFinder = seqan::Finder, seqan::Alloc<> > >, seqan::IndexEsa<> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 458 | findAllExactIndex(matches, multiplex, esaFinder, stats); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:1733:14: required from ‘int demultiplexingStage(DemultiplexingParams&, TSeqsVec&, TIdsVec&, TFinder&, TMap&, GeneralStats&) [with TSeqsVec = seqan::String > > >; TIdsVec = seqan::String > > >; TFinder = seqan::Finder, seqan::Alloc<> > >, seqan::IndexEsa<> > >; TMap = seqan::String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1733 | doAll(groups, params.multiplex, params.barcodes, esaFinder, params.stats, params.exclude); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2659:40: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 2659 | if (demultiplexingStage(demultiplexingParams, seqSet, idSet, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2660 | esaFinder, map, generalStats) != 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_set_base.h:699:12: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 699 | result = pos; | ~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1610:29: required from ‘void seqan::arrayMoveForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1610 | _arrayMoveForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1444:21: required from ‘void seqan::_arrayConstructMovePointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1444 | arrayMoveForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1465:31: required from ‘void seqan::arrayConstructMove(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1465 | _arrayConstructMovePointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:849:31: required from ‘static typename seqan::Size::Type seqan::ClearSpaceExpandStringBase_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type) [with T = seqan::String >; TExpand = seqan::Tag; typename seqan::Size::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 849 | arrayConstructMove(old_array, old_array + start, seq_array); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1014:62: required from ‘typename seqan::Size >::Type seqan::_clearSpace(String&, TSize, TPosition, TPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = long unsigned int; TPosition = long unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1014 | return ClearSpaceStringBase_ >::_clearSpace_(me, size, pos_begin, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1048:30: required from ‘typename seqan::Size >::Type seqan::resizeSpace(String&, TSize, TBeginPosition, TEndPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = int; TBeginPosition = int; TEndPosition = unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1048 | TSize_ ret_ = _clearSpace( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^ 1049 | me, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~ 1050 | static_cast(size), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 1051 | static_cast(pos_begin), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1052 | static_cast(pos_end), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1053 | tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2212:23: required from ‘TSize seqan::resizeSpace(T&, TSize, TBeginPosition, TEndPosition) [with T = String >; TSize = int; TBeginPosition = int; TEndPosition = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2212 | return resizeSpace(me, size, pos_begin, pos_end, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2267:16: required from ‘void seqan::erase(T&, TBeginPosition, TEndPosition) [with T = String >; TBeginPosition = int; TEndPosition = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2267 | resizeSpace(me, 0, pos, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/general_processing.h:716:22: required from ‘void preTrim(TSeqs&, TIds&, TMulti&, unsigned int, unsigned int, unsigned int, GeneralStats&) [with TSeqs = seqan::StringSet > >; TIds = seqan::StringSet > >; TMulti = seqan::StringSet > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 716 | erase(seqs[i], 0, head); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:1607:24: required from ‘void preprocessingStage(TSeqs&, TIds&, DemultiplexingParams&, ProcessingParams&, const seqan::ArgumentParser&, GeneralStats&) [with TSeqs = seqan::StringSet > >; TIds = seqan::StringSet > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1607 | preTrim(seqs, ids, demultiplexingParams.multiplex, processingParams.trimLeft, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1608 | processingParams.trimRight, processingParams.minLen, generalStats); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2655:35: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2655 | preprocessingStage(seqSet[0], idSet[0], demultiplexingParams, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2656 | processingParams, parser, generalStats); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1589:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1589 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:65: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h: In instantiation of ‘seqan::Pipe >, TPair, TLimitsString> >& seqan::Pipe >, TPair, TLimitsString> >::operator++() [with TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPair = seqan::Pair >; TLimitsString = seqan::String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:317:20: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 317 | sorter << sampler; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:599:20: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 599 | tmp.i1 = localPos; | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:324:41: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 324 | TNames_Sliced names_sliced; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::pop(TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:925:24: required from ‘void seqan::Pool::pop(TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 925 | reader->pop(Ref_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1159:15: required from ‘void seqan::pop(Pool&, TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1159 | me.pop(Ref_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_separator7.h:62:7: required from ‘void seqan::_skew7SeparateSlices(TInput&, const TFunctor&, TOut1&, TOut2&, TOut4&) [with TInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TFunctor = _skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > >; TOut1 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut2 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut4 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 62 | pop(in, i); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~^~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:342:25: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 342 | _skew7SeparateSlices( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^ 343 | names_sliced, func_slice, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~ 344 | names_S1, names_S2, names_S4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:926:18: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 926 | Ref_ = *cur; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 5, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:414:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 414 | if (r >= 6) push(out6, o6); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 5, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 4, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:415:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 415 | if (r >= 5) push(out5, o5); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 4, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:432:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 432 | if (r >= 3) push(out3, o3); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:443:9: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 443 | push(out0, o0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:243:12: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 243 | struct Pipe< TInput, Skew7 > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >, seqan::Tag >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T = seqan::SimpleType; unsigned int SIZE = 6; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:404:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 404 | _copy(inValue[0], *in.in1); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:385:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 385 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: ‘struct seqan::Pair >’ declared here 95 | struct Pair | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >, seqan::Tag >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T = seqan::SimpleType; unsigned int SIZE = 4; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:422:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 422 | _copy(inValue[5], *in.in3); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:385:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 385 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: ‘struct seqan::Pair >’ declared here 95 | struct Pair | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h: In instantiation of ‘static void seqan::Pipe, seqan::Merger7Multi >::_copy(TSkewDCStream&, const seqan::Triple >, seqan::Tag >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T = seqan::SimpleType; unsigned int SIZE = 5; TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >; TSkewDCStream = seqan::SkewDCStream >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:431:11: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 431 | _copy(inValue[6], *in.in4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: required from ‘seqan::Pipe, seqan::Merger7Multi >& seqan::Pipe, seqan::Merger7Multi >::operator++() [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 464 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:431:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 431 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:801:108: required from ‘void seqan::assign(String&, Pipe&) [with TValue = Pair >; TStringSpec = Alloc<>; TInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 801 | for (TDestIter _cur = begin(dest, Standard()), _end = end(dest, Standard()); _cur != _end; ++_cur, ++src) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:826:15: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:385:19: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct seqan::Pair >’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 385 | memcpy(&dst.i.i1, &src.i1, sizeof(T1)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: ‘struct seqan::Pair >’ declared here 95 | struct Pair | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayMoveBackwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1641:30: required from ‘void seqan::arrayMoveBackward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1641 | _arrayMoveBackwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1213:26: required from ‘void seqan::arrayMove(TSource1, TSource2, TTarget) [with TTarget = SimpleType*; TSource1 = SimpleType*; TSource2 = SimpleType*]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1213 | arrayMoveBackward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1660:14: required from ‘void seqan::_arrayClearSpacePointer(TValue*, size_t, size_t, size_t, const True&) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1660 | arrayMove(array_begin + keep_from, array_begin + array_length, array_begin + move_to); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1681:28: required from ‘void seqan::arrayClearSpace(TValue*, size_t, size_t, size_t) [with TValue = SimpleType; size_t = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1681 | _arrayClearSpacePointer(array_begin, array_length, keep_from, move_to, typename IsSimple::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:856:28: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1048:30: required from ‘typename seqan::Size >::Type seqan::resizeSpace(String&, TSize, TBeginPosition, TEndPosition, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize = int; TBeginPosition = int; TEndPosition = unsigned int; TExpand = TagGenerous_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1048 | TSize_ ret_ = _clearSpace( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^ 1049 | me, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~ 1050 | static_cast(size), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 1051 | static_cast(pos_begin), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1052 | static_cast(pos_end), /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1053 | tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2212:23: required from ‘TSize seqan::resizeSpace(T&, TSize, TBeginPosition, TEndPosition) [with T = String >; TSize = int; TBeginPosition = int; TEndPosition = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 2212 | return resizeSpace(me, size, pos_begin, pos_end, typename DefaultOverflowExplicit::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2267:16: required from ‘void seqan::erase(T&, TBeginPosition, TEndPosition) [with T = String >; TBeginPosition = int; TEndPosition = unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 2267 | resizeSpace(me, 0, pos, pos_end); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/general_processing.h:716:22: required from ‘void preTrim(TSeqs&, TIds&, TMulti&, unsigned int, unsigned int, unsigned int, GeneralStats&) [with TSeqs = seqan::StringSet > >; TIds = seqan::StringSet > >; TMulti = seqan::StringSet > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 716 | erase(seqs[i], 0, head); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:1607:24: required from ‘void preprocessingStage(TSeqs&, TIds&, DemultiplexingParams&, ProcessingParams&, const seqan::ArgumentParser&, GeneralStats&) [with TSeqs = seqan::StringSet > >; TIds = seqan::StringSet > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 1607 | preTrim(seqs, ids, demultiplexingParams.multiplex, processingParams.trimLeft, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1608 | processingParams.trimRight, processingParams.minLen, generalStats); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2655:35: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: 2655 | preprocessingStage(seqSet[0], idSet[0], demultiplexingParams, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2656 | processingParams, parser, generalStats); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:95:8: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1621:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1621 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h: In instantiation of ‘void seqan::assign(TTarget&, TSource&) [with TTarget = Index, Alloc<> > >, IndexEsa<> >; TSource = Index, Alloc<> > >, IndexEsa<> >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:730:15: required from ‘void seqan::create(Holder >&, TValue2&) [with TValue = Index, Alloc<> > >, IndexEsa<> >; TValue2 = Index, Alloc<> > >, IndexEsa<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 730 | assign(_dataValue(me), value_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:674:19: required from ‘void seqan::create(Holder >&) [with TValue = Index, Alloc<> > >, IndexEsa<> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 674 | create(me, _dataValue(me)); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/holder_tristate.h:990:15: required from ‘typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Index, Alloc<> > >, IndexEsa<> >; typename Reference > >::Type = Index, Alloc<> > >, IndexEsa<> >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 990 | create(me); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index.h:118:15: required from ‘typename seqan::Parameter_ >::Type seqan::container(Finder, TSpecFinder>&) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecFinder = const Tag; typename Parameter_ >::Type = Index, Alloc<> > >, IndexEsa<> >&]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 118 | return value(me.index); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/find/find_base.h:1165:18: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/find_index.h:292:19: required from ‘bool seqan::find(Finder, TSpecFinder>&, const TPattern&) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecFinder = const Tag; TPattern = String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 292 | _findFirstIndex(finder, needle(pattern), TSpecFinder()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/demultiplex.h:274:10: required from ‘int findExactIndex(const TPrefix&, TFinder&) [with TPrefix = seqan::String >; TFinder = seqan::Finder, seqan::Alloc<> > >, seqan::IndexEsa<> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 274 | if (find(finder, prefix)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/demultiplex.h:326:33: required from ‘void findAllExactIndex(seqan::String&, const TPrefices&, const TFinder&, TStats&) [with TPrefices = seqan::StringSet > >; TFinder = seqan::Finder, seqan::Alloc<> > >, seqan::IndexEsa<> > >; TStats = DemultiplexStats]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 326 | int hit = findExactIndex(prefices[i], finderSet[tid]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/demultiplex.h:458:19: required from ‘void doAll(seqan::StringSet >&, TMultiplex&, TBarcodes&, TFinder&, DemultiplexStats&, bool) [with TBarcodes = seqan::StringSet, seqan::Alloc<> > >; TMultiplex = seqan::StringSet > >; TFinder = seqan::Finder, seqan::Alloc<> > >, seqan::IndexEsa<> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 458 | findAllExactIndex(matches, multiplex, esaFinder, stats); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:1733:14: required from ‘int demultiplexingStage(DemultiplexingParams&, TSeqsVec&, TIdsVec&, TFinder&, TMap&, GeneralStats&) [with TSeqsVec = seqan::String > > >; TIdsVec = seqan::String > > >; TFinder = seqan::Finder, seqan::Alloc<> > >, seqan::IndexEsa<> > >; TMap = seqan::String]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 1733 | doAll(groups, params.multiplex, params.barcodes, esaFinder, params.stats, params.exclude); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2659:40: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: 2659 | if (demultiplexingStage(demultiplexingParams, seqSet, idSet, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2660 | esaFinder, map, generalStats) != 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/fundamental_transport.h:133:12: warning: implicitly-declared ‘seqan::Index, seqan::Alloc<> > >, seqan::IndexEsa<> >& seqan::Index, seqan::Alloc<> > >, seqan::IndexEsa<> >::operator=(const seqan::Index, seqan::Alloc<> > >, seqan::IndexEsa<> >&)’ is deprecated [-Wdeprecated-copy] 133 | target = source; | ~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: because ‘seqan::Index, seqan::Alloc<> > >, seqan::IndexEsa<> >’ has user-provided ‘seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet, seqan::Alloc<> > >; TSpec = void]’ 548 | Index(Index const &other): | ^~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe.h:64: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘const typename seqan::Value > >::Type& seqan::Pipe >::operator*() [with TInput = seqan::Pool >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NCompMulti >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>; typename seqan::Value > >::Type = seqan::Pair >, long unsigned int, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:148:22: required from ‘const typename seqan::Value > >::Type seqan::Pipe >::operator*() const [with TInput = seqan::Pipe >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int> > >; TFunctor = seqan::_skew7GlobalSlicedMulti >, long unsigned int, seqan::Tag >, seqan::String >, long unsigned int, seqan::Pair > >; typename seqan::Value > >::Type = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 148 | return F(*in); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:24: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 328 | names_sliced << slicedPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_esa_base.h:548:17: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:134:20: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 134 | tmp.i1 = getValueI1(*in); | ~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NCompMulti >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int> > >; TFunctor = seqan::_skew7GlobalSlicedMulti >, long unsigned int, seqan::Tag >, seqan::String >, long unsigned int, seqan::Pair > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 153 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 328 | names_sliced << slicedPos; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:143:22: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >& seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 143 | last = *in; | ~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple, 7, seqan::BitPacked<> >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_separator7.h:64:9: required from ‘void seqan::_skew7SeparateSlices(TInput&, const TFunctor&, TOut1&, TOut2&, TOut4&) [with TInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TFunctor = _skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > >; TOut1 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut2 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut4 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 64 | push(out4, i); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:342:25: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 342 | _skew7SeparateSlices( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^ 343 | names_sliced, func_slice, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~ 344 | names_S1, names_S2, names_S4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_separator7.h:64:9: required from ‘void seqan::_skew7SeparateSlices(TInput&, const TFunctor&, TOut1&, TOut2&, TOut4&) [with TInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TFunctor = _skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > >; TOut1 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut2 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut4 = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 64 | push(out4, i); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:342:25: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 342 | _skew7SeparateSlices( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~^ 343 | names_sliced, func_slice, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~ 344 | names_S1, names_S2, names_S4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TSpec = MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:416:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 416 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TSpec = MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:416:21: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 416 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: required from ‘bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 350 | _skew7ExtendMulti( /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^ 351 | textIn, limits, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~ 352 | names_S1, names_S2, names_S4, /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:294:11: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:317:20: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >& seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple, 7, seqan::BitPacked<> >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘bool seqan::control(Pipe >&, const ControlBeginRead&) [with TInput = Pool >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >; TCompare = _skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int>; ControlBeginRead = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:651:23: required from ‘bool seqan::control(Pipe&, const TCommand&) [with TInput = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >; TSpec = Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > >; TCommand = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 651 | return control(me.in, command); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >; TSpec = Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tuple, 7, BitPacked<> >, Tag >, SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NCompMulti >, Tuple, 7, BitPacked<> >, Tag >, int> > >, Filter<_skew7GlobalSlicedMulti >, long unsigned int, Tag >, String >, long unsigned int, Pair > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:164:21: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >& seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 164 | me.last = *me.in; | ~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tuple, 7, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple, 7, seqan::BitPacked<> >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:165:23: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 165 | me.tmp.i1 = me.last.i1; | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Pair >; TConfig = MapperConfigSize >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:401:106: required from ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 401 | /* 4 */ o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn4).i2; ++nameIn4; o4.i1 = p; ++p; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:350:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:341:41: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 341 | TNames_Sliced names_sliced(map_sliced); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NComp >, seqan::Tag >, int>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:345:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 345 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:143:22: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 143 | last = *in; | ~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:352:45: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 352 | TNames_Linear_Unique names_linear(map_linear); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:161:29: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 161 | if (r >= 6) push(out6, o6); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:162:29: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 162 | if (r >= 5) push(out5, o5); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:179:29: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 179 | if (r >= 3) push(out3, o3); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:190:17: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 190 | push(out0, o0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:173:12: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 173 | struct Pipe< TInput, Skew3 > /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 312 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:367:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::setHost(PairDecrementer_&, const TLimits2&) [with TPair = Pair >; TLimits = String >; unsigned int m = 7; TLimits2 = String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:537:11: required from ‘void seqan::Pipe >, TPair, TLimitsString> >::prepare() [with TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPair = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 537 | setHost(localPos, limits); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:613:19: required from ‘bool seqan::control(Pipe, TPair, TLimitsString> >&, const ControlBeginRead&) [with TInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; unsigned int m = 7; TPack = BitPacked<>; TPair = Pair >; TLimitsString = String >; ControlBeginRead = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 613 | me.prepare(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, Pair >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:1119:16: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 1119 | me.pos = TPair(0, 0); | ~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h: In instantiation of ‘void seqan::Pipe >, TPair, TLimitsString> >::fill() [with TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPair = seqan::Pair >; TLimitsString = seqan::String >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:544:13: required from ‘void seqan::Pipe >, TPair, TLimitsString> >::prepare() [with TInput = seqan::Pipe, seqan::Alloc<> > > >, seqan::Source<> >, seqan::Caster, seqan::CasterReinterpret> >; unsigned int m = 7; TPair = seqan::Pair >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 544 | fill(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:613:19: required from ‘bool seqan::control(Pipe, TPair, TLimitsString> >&, const ControlBeginRead&) [with TInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; unsigned int m = 7; TPack = BitPacked<>; TPair = Pair >; TLimitsString = String >; ControlBeginRead = Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 613 | me.prepare(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TSpec = Multi >, Pair >, String > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple, 7, BitPacked<> >, Tag >; TSpec = SorterSpec >, Tuple, 7, BitPacked<> >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >, Multi >, Pair >, String > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_sampler.h:557:32: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 557 | tmp.i1 = localPos; | ~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘bool seqan::control(Pipe >&, const ControlBeginRead&) [with TInput = Pool >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >; TCompare = _skew7NComp >, Tag >, int>; ControlBeginRead = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pool >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >; TSpec = Namer<_skew7NComp >, Tag >, int> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:345:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 345 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:164:21: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 164 | me.last = *me.in; | ~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h: In instantiation of ‘TResult seqan::_skew7NComp::operator()(const TValue&, const TValue&) const [with TValue = seqan::Pair >, seqan::Tag >; TResult = int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:141:30: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TCompare = seqan::_skew7NComp >, seqan::Tag >, int>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 141 | if (!eof(in) && C(last, *in) != 0) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:345:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 345 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:74:43: warning: taking address of packed member of ‘seqan::Tuple >’ may result in an unaligned pointer value [-Waddress-of-packed-member] 74 | const TStoredValue *sa = a.i2.i; | ~~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: taking address of packed member of ‘seqan::Tuple >’ may result in an unaligned pointer value [-Waddress-of-packed-member] 75 | const TStoredValue *sb = b.i2.i; | ~~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:163:29: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 163 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:163:29: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 163 | if (r >= 4) push(out124, o4); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Pair >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >, Sampler<7, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >, Sampler<7, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >, Sampler<7, Tag > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:335:20: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Pair >; TConfig = MapperConfigSize<_skew7NMapLinear >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:148:104: required from ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 148 | /* 4 */ o4.i2[0] = o5.i2[0] = o6.i2[0] = (*nameIn).i2; ++nameIn; o4.i1 = p--; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:362:29: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:247:41: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 247 | TNames_Sliced names_sliced(map_sliced); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 218 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:376:34: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TCompare = seqan::_skew3NComp >, seqan::Tag >, int>]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:251:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 251 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 218 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:376:34: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:143:22: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 143 | last = *in; | ~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:684:24: required from ‘void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 684 | else handler2->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:953:16: required from ‘bool seqan::Pool::endWrite() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 953 | writer->end(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:837:13: required from ‘seqan::Pool::~Pool() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 837 | endWrite(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:259:45: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 259 | TNames_Linear_Unique names_linear(map_linear); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 218 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:376:34: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:584:58: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 584 | *cb->cur = pool.undefinedValue; | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple, Tag >; TSpec = SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender3.h:123:17: required from ‘bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 123 | push(out0, o0); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:269:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 269 | _skew3Extend(textIn, names_linear, sortedS0, sortedS12); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: required from ‘seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 218 | process(_textIn); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:376:34: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_aggregate.h:59: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h: In instantiation of ‘const typename seqan::StoredTupleValue_::Type& seqan::Tuple >::operator[](TPos) const [with TPos = int; TValue = long unsigned int; unsigned int SIZE = 6; typename seqan::StoredTupleValue_::Type = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:124:27: required from ‘bool seqan::CompareSkewDCStream::operator()(const seqan::SkewDCStream&, const seqan::SkewDCStream&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 124 | if (a.i.i3[i] < b.i.i3[i]) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:307:23: required from ‘void seqan::Pipe, seqan::Merger7>::insertStream(unsigned int) [with TInput0 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 307 | if (!streamGreater(inValue[stream],inValue[rank[right]])) break; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:319:4: required from ‘seqan::Pipe, seqan::Merger7>& seqan::Pipe, seqan::Merger7>::operator++() [with TInput0 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 319 | insertStream(rank[first]); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:440:13: required from ‘seqan::Pipe& seqan::Pipe::operator++() [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 440 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_counter.h:105:13: required from ‘seqan::Pipe& seqan::Pipe::operator++() [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >, seqan::Skew7>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 105 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:620:9: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: returning reference to temporary [-Wreturn-local-addr] 171 | return i[k]; | ~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple >, Tuple, Tuple, 6, BitPacked<> >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:446:6: required from ‘void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4, seqan::BitPacked<> >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 446 | ++in.in5; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:464:4: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew7NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h: In instantiation of ‘bool seqan::control(Pipe >&, const ControlBeginRead&) [with TInput = Pool >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >; TCompare = _skew3NComp >, Tag >, int>; ControlBeginRead = Tag]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:712:23: required from ‘bool seqan::beginRead(Pipe&) [with TInput = Pool >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >; TSpec = Namer<_skew3NComp >, Tag >, int> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 712 | return control(me, ControlBeginRead()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1354:23: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1354 | if (!beginRead(src)) return false; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:251:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 251 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:164:21: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 164 | me.last = *me.in; | ~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h: In instantiation of ‘TResult seqan::_skew3NComp::operator()(const TValue&, const TValue&) const [with TValue = seqan::Pair >, seqan::Tag >; TResult = int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:141:30: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TCompare = seqan::_skew3NComp >, seqan::Tag >, int>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 141 | if (!eof(in) && C(last, *in) != 0) { /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:251:26: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 251 | names_sliced << namer; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:74:43: warning: taking address of packed member of ‘seqan::Tuple >’ may result in an unaligned pointer value [-Waddress-of-packed-member] 74 | const TStoredValue *sa = a.i2.i; | ~~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: taking address of packed member of ‘seqan::Tuple >’ may result in an unaligned pointer value [-Waddress-of-packed-member] 75 | const TStoredValue *sb = b.i2.i; | ~~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple, Tag >; TSpec = MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender3.h:101:17: required from ‘bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 101 | push(out12, o2); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:269:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 269 | _skew3Extend(textIn, names_linear, sortedS0, sortedS12); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:75:43: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple, Tag >; TSpec = MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender3.h:101:17: required from ‘bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 101 | push(out12, o2); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:269:29: required from ‘bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 269 | _skew3Extend(textIn, names_linear, sortedS0, sortedS12); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:218:11: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Pair >; TConfig = MapperConfigSize<_skew7NMapSliced >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13: required from ‘seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pool >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >; TFunctor = seqan::filterI2 >, long unsigned int>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 153 | ++in; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_sa_lss.h:415:29: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Pair >, seqan::Tag >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tag >, int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >, Sampler<3> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >, Sampler<3> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: required from ‘bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >, Sampler<3> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1395 | return assign(dest, src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:241:20: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:937:18: warning: implicitly-declared ‘constexpr seqan::Pair >, seqan::Tag >& seqan::Pair >, seqan::Tag >::operator=(const seqan::Pair >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 937 | *cur = Val_; | ~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >, seqan::Tag >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = seqan::Tuple >]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Pair >; TConfig = MapperConfigSize<_skew3NMapLinear >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender3.h:86:38: required from ‘bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 86 | o2.i2[0] = (*nameIn).i2; ++nameIn; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:269:29: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pipe >, Tag >, SorterSpec >, Tag >, int>, long unsigned int, File > > > >, Namer<_skew3NComp >, Tag >, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Pair >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:673:41: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 673 | if (handler1) handler1->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:361:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 361 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Pair >; TConfig = seqan::MapperConfigSize >, long unsigned int>, long unsigned int, seqan::File > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:674:25: required from ‘void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Pair >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 674 | else handler2->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:930:25: required from ‘void seqan::Pool::push(const TValue&) [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 930 | writer->push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1191:16: required from ‘void seqan::push(Pool&, const TValue&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1191 | me.push(Val_); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1356:17: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1356 | push(dest, *src); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~^~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: required from ‘bool seqan::assign(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 1388 | return beginWrite(dest) && append(dest, src) && endWrite(dest); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:567:33: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 567 | *cb.cur = item; | ~~~~~~~~^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended, Tuple >, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer, seqan::Tuple >, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:301:6: required from ‘void seqan::Pipe, seqan::Merger7>::insertStream(unsigned int) [with TInput0 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 301 | ++in.in5; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:319:4: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple >, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Pair >; TConfig = MapperConfigSize<_skew3NMapSliced >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Pair >; TSpec = seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13: required from ‘bool seqan::append(Pool&, TSource&) [with TValue = Pair >; TSpec = MapperSpec >, long unsigned int>, long unsigned int, File > > >; TSource = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1357 | ++src; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Pair >& seqan::Pair >::operator=(const seqan::Pair >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: because ‘seqan::Pair >’ has user-provided ‘seqan::Pair >::Pair(const seqan::Pair >&) [with T1 = long unsigned int; T2 = long unsigned int]’ 110 | SEQAN_HOST_DEVICE Pair(Pair const &_p) : i1(_p.i1), i2(_p.i2) {} | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h: In instantiation of ‘seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple, Tag >; TConfig = MapperConfigSize<_skew3NMapExtended, Tuple, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:387:33: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 387 | return processBuffer(*chain.first, *this); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:607:32: required from ‘seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer, seqan::Tuple, seqan::Tag >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 607 | else return handler2->next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_base.h:919:38: required from ‘void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | buffer = handler.next(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15: required from ‘seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 919 | reader->pop(); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger3.h:111:17: required from ‘seqan::Pipe, seqan::Merger3>& seqan::Pipe, seqan::Merger3>::operator++() [with TInput0 = seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TInput12 = seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 111 | ++in.in2; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew3.h:329:13: [ skipping 11 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/pair_packed.h:110:23: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:252:50: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 252 | *refNext = *I; | ~~~~~~~~~^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:253:44: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 253 | *I = *refPrev; | ~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_mapper.h:293:46: warning: implicitly-declared ‘constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)’ is deprecated [-Wdeprecated-copy] 293 | *cur = *refPrev; | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: because ‘seqan::Triple, seqan::Tuple, seqan::Tag >’ has user-provided ‘seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]’ 103 | inline Triple(Triple const &_p) | ^~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h: In instantiation of ‘const typename seqan::StoredTupleValue_::Type& seqan::Tuple >::operator[](TPos) const [with TPos = unsigned int; TValue = long unsigned int; unsigned int SIZE = 6; typename seqan::StoredTupleValue_::Type = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:191:25: required from ‘TResult seqan::_skew7ExtendComp::operator()(const TValue&, const TValue&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; unsigned int EXT_LENGTH = 3; TResult = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 191 | if (a.i3[i] == b.i3[i]) continue; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:68:21: required from ‘bool seqan::AdaptorCompare2Less::operator()(const typename TCompare::first_argument_type&, const typename TCompare::second_argument_type&) const [with TCompare = seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 3, int>; typename TCompare::first_argument_type = seqan::Triple, seqan::Tuple >, seqan::Tag >; typename TCompare::second_argument_type = seqan::Triple, seqan::Tuple >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 68 | return C(a, b) < 0; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~^~~~~~ /usr/include/c++/14/bits/predefined_ops.h:158:30: required from ‘constexpr bool __gnu_cxx::__ops::_Iter_comp_iter<_Compare>::operator()(_Iterator1, _Iterator2) [with _Iterator1 = seqan::Triple, seqan::Tuple >, seqan::Tag >*; _Iterator2 = seqan::Triple, seqan::Tuple >, seqan::Tag >*; _Compare = seqan::AdaptorCompare2Less, seqan::Tuple >, seqan::Tag >, 3, int> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 158 | { return bool(_M_comp(*__it1, *__it2)); } /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~^~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_algo.h:1771:14: required from ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = seqan::Triple, seqan::Tuple >, seqan::Tag >*; _Compare = __gnu_cxx::__ops::_Iter_comp_iter, seqan::Tuple >, seqan::Tag >, 3, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1771 | if (__comp(__i, __first)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_algo.h:1811:25: required from ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = seqan::Triple, seqan::Tuple >, seqan::Tag >*; _Compare = __gnu_cxx::__ops::_Iter_comp_iter, seqan::Tuple >, seqan::Tag >, 3, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 1811 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_algo.h:1902:31: [ skipping 11 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/triple_packed.h:103:12: note: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: returning reference to temporary [-Wreturn-local-addr] 171 | return i[k]; | ~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h: In instantiation of ‘const typename seqan::StoredTupleValue_::Type& seqan::Tuple >::operator[](TPos) const [with TPos = unsigned int; TValue = long unsigned int; unsigned int SIZE = 4; typename seqan::StoredTupleValue_::Type = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:191:25: required from ‘TResult seqan::_skew7ExtendComp::operator()(const TValue&, const TValue&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; unsigned int EXT_LENGTH = 1; TResult = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 191 | if (a.i3[i] == b.i3[i]) continue; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:68:21: required from ‘bool seqan::AdaptorCompare2Less::operator()(const typename TCompare::first_argument_type&, const typename TCompare::second_argument_type&) const [with TCompare = seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 1, int>; typename TCompare::first_argument_type = seqan::Triple, seqan::Tuple >, seqan::Tag >; typename TCompare::second_argument_type = seqan::Triple, seqan::Tuple >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 68 | return C(a, b) < 0; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~^~~~~~ /usr/include/c++/14/bits/predefined_ops.h:158:30: required from ‘constexpr bool __gnu_cxx::__ops::_Iter_comp_iter<_Compare>::operator()(_Iterator1, _Iterator2) [with _Iterator1 = seqan::Triple, seqan::Tuple >, seqan::Tag >*; _Iterator2 = seqan::Triple, seqan::Tuple >, seqan::Tag >*; _Compare = seqan::AdaptorCompare2Less, seqan::Tuple >, seqan::Tag >, 1, int> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 158 | { return bool(_M_comp(*__it1, *__it2)); } /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~^~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_algo.h:1771:14: required from ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = seqan::Triple, seqan::Tuple >, seqan::Tag >*; _Compare = __gnu_cxx::__ops::_Iter_comp_iter, seqan::Tuple >, seqan::Tag >, 1, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 1771 | if (__comp(__i, __first)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_algo.h:1811:25: required from ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = seqan::Triple, seqan::Tuple >, seqan::Tag >*; _Compare = __gnu_cxx::__ops::_Iter_comp_iter, seqan::Tuple >, seqan::Tag >, 1, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 1811 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_algo.h:1902:31: [ skipping 11 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: returning reference to temporary [-Wreturn-local-addr] 171 | return i[k]; | ~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h: In instantiation of ‘const typename seqan::StoredTupleValue_::Type& seqan::Tuple >::operator[](TPos) const [with TPos = unsigned int; TValue = long unsigned int; unsigned int SIZE = 5; typename seqan::StoredTupleValue_::Type = long unsigned int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:191:25: required from ‘TResult seqan::_skew7ExtendComp::operator()(const TValue&, const TValue&) const [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; unsigned int EXT_LENGTH = 2; TResult = int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 191 | if (a.i3[i] == b.i3[i]) continue; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~^ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:68:21: required from ‘bool seqan::AdaptorCompare2Less::operator()(const typename TCompare::first_argument_type&, const typename TCompare::second_argument_type&) const [with TCompare = seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 2, int>; typename TCompare::first_argument_type = seqan::Triple, seqan::Tuple >, seqan::Tag >; typename TCompare::second_argument_type = seqan::Triple, seqan::Tuple >, seqan::Tag >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 68 | return C(a, b) < 0; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~^~~~~~ /usr/include/c++/14/bits/predefined_ops.h:158:30: required from ‘constexpr bool __gnu_cxx::__ops::_Iter_comp_iter<_Compare>::operator()(_Iterator1, _Iterator2) [with _Iterator1 = seqan::Triple, seqan::Tuple >, seqan::Tag >*; _Iterator2 = seqan::Triple, seqan::Tuple >, seqan::Tag >*; _Compare = seqan::AdaptorCompare2Less, seqan::Tuple >, seqan::Tag >, 2, int> >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 158 | { return bool(_M_comp(*__it1, *__it2)); } /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~^~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_algo.h:1771:14: required from ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = seqan::Triple, seqan::Tuple >, seqan::Tag >*; _Compare = __gnu_cxx::__ops::_Iter_comp_iter, seqan::Tuple >, seqan::Tag >, 2, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 1771 | if (__comp(__i, __first)) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_algo.h:1811:25: required from ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = seqan::Triple, seqan::Tuple >, seqan::Tag >*; _Compare = __gnu_cxx::__ops::_Iter_comp_iter, seqan::Tuple >, seqan::Tag >, 2, int> > >]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 1811 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_algo.h:1902:31: [ skipping 11 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:194:37: required from ‘void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String, Alloc<> >; TSetSpec = Owner<>; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 194 | _createSuffixArrayPipelining(sa, s, Skew7()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:221:34: required from ‘void seqan::createSuffixArray(TSA&, const TText&, const TAlgSpec&) [with TSA = String >, Alloc<> >; TText = StringSet, Alloc<> > >; TAlgSpec = Skew7]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 221 | _createSuffixArrayWrapper(sa, s, alg, typename SACreatorRandomAccess_::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:685:20: required from ‘bool seqan::indexCreate(Index&, FibreSA, TSpecAlg) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TSpecAlg = Skew7; FibreSA = const Tag]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 685 | createSuffixArray(indexSA(index), indexText(index), alg); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:726:27: required from ‘bool seqan::indexCreate(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 726 | return indexCreate(index, fibre, typename DefaultIndexCreator, Tag const>::Type()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_shims.h:835:21: required from ‘bool seqan::indexRequire(Index&, Tag) [with TText = StringSet, Alloc<> > >; TSpec = IndexEsa<>; TFibre = FibreSA_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 835 | return indexCreate(index, fibre); // and create table /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexlib.cpp:2358:25: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: 2358 | indexRequire(indexSet, FibreSA()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/tuple_base.h:171:17: warning: returning reference to temporary [-Wreturn-local-addr] 171 | return i[k]; | ~^ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io.h:64: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h: In member function ‘void seqan::SequenceStreamImpl_::_guessFileTypeAndFormatForReadingAndInitialize()’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:310:25: warning: this statement may fall through [-Wimplicit-fallthrough=] 310 | _fileFormat = this->_checkFormat(*_istreamReader); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/seq_io/sequence_stream_impl.h:313:9: note: here 313 | case SeqIOFileType_::FILE_TYPE_AUTO: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h: In function ‘bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:142:117: warning: this statement may fall through [-Wimplicit-fallthrough=] 142 | /* 6 */ cp___(o6,0, *textIn); ++textIn; o6.i1 = p--; | ~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:144:9: note: here 144 | case 5: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:145:118: warning: this statement may fall through [-Wimplicit-fallthrough=] 145 | /* 5 */ cp___(o5,0,cp___(o6,1, *textIn)); ++textIn; o5.i1 = p--; | ~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:147:9: note: here 147 | case 4: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:149:103: warning: this statement may fall through [-Wimplicit-fallthrough=] 149 | cp___(o4,0,cp___(o5,1,cp___(o6,2, *textIn))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:151:9: note: here 151 | case 3: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:152:119: warning: this statement may fall through [-Wimplicit-fallthrough=] 152 | /* 3 */ cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))); ++textIn; o3.i1 = p--; | ~~~~~~^~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:154:9: note: here 154 | case 2: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:156:105: warning: this statement may fall through [-Wimplicit-fallthrough=] 156 | cp___(o2,0,cp___(o3,1,cp___(o4,2,cp___(o5,3,cp___(o6,4, *textIn))))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:158:9: note: here 158 | case 1: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h: In function ‘bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe, Alloc<> > > >, Source<> >, Caster, CasterReinterpret> >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple, 4, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 4, BitPacked<> >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple, 5, BitPacked<> >, Tag >, SorterSpec >, Tuple, Tuple, 5, BitPacked<> >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple, 6, BitPacked<> >, Tag >, MapperSpec >, Tuple, Tuple, 6, BitPacked<> >, Tag >, long unsigned int>, long unsigned int, File > > > >]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:395:130: warning: this statement may fall through [-Wimplicit-fallthrough=] 395 | /* 6 */ cp___(o6,0, *textIn); ++textIn; o6.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:397:25: note: here 397 | case 5: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:398:131: warning: this statement may fall through [-Wimplicit-fallthrough=] 398 | /* 5 */ cp___(o5,0,cp___(o6,1, *textIn)); ++textIn; o5.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:400:25: note: here 400 | case 4: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:402:162: warning: this statement may fall through [-Wimplicit-fallthrough=] 402 | cp___(o4,0,cp___(o5,1,cp___(o6,2, *textIn))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:404:25: note: here 404 | case 3: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:405:132: warning: this statement may fall through [-Wimplicit-fallthrough=] 405 | /* 3 */ cp___(o3,0,cp___(o4,1,cp___(o5,2,cp___(o6,3, *textIn)))); ++textIn; o3.i1 = p; ++p; | ^~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:407:25: note: here 407 | case 2: | ^~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:409:138: warning: this statement may fall through [-Wimplicit-fallthrough=] 409 | cp___(o2,0,cp___(o3,1,cp___(o4,2,cp___(o5,3,cp___(o6,4, *textIn))))); ++textIn; | ^~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pump_extender7.h:411:25: note: here 411 | case 1: | ^~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io.h:59, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/store.h:41: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h: In function ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:36: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 399 | snprintf(buffer, 4, "%d", x); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘seqan::_assignTagsBamToSamOneTag >, seqan::Iter > const, seqan::AdaptorIterator > > >(seqan::String >&, seqan::Iter > const, seqan::AdaptorIterator > >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/bam_io/bam_sam_conversion.h:399:21: /usr/include/bits/stdio2.h:54:35: note: ‘__snprintf_chk’ output between 2 and 5 bytes into a destination of size 4 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int> > >(seqan::PriorityType >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, unsigned long>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:423:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, unsigned long>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int> > >(seqan::PriorityType >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7ExtendComp >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, unsigned long>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:432:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 4u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, unsigned long>, unsigned long, seqan::File > > > > >, seqan::Merger7Multi > > >::insertStream(unsigned int)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended, seqan::Tuple >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended, seqan::Tuple >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, seqan::Tuple >, seqan::Tag > >, void, unsigned long>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 1u, int> > >(seqan::PriorityType, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 1u, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned long>, unsigned long, seqan::File > > > > >, seqan::Merger7>::insertStream(unsigned int)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:279:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned long>, unsigned long, seqan::File > > > > >, seqan::Merger7>::insertStream(unsigned int)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended, seqan::Tuple >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended, seqan::Tuple >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, seqan::Tuple >, seqan::Tag > >, void, unsigned long>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, seqan::Tuple >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Tuple >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 2u, int> > >(seqan::PriorityType, seqan::Tuple >, seqan::Tag > >, seqan::MergeStreamComparer, seqan::Tuple >, seqan::Tag >, seqan::_skew7ExtendComp, seqan::Tuple >, seqan::Tag >, 2u, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned long>, unsigned long, seqan::File > > > > >, seqan::Merger7>::insertStream(unsigned int)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:289:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2u, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned long>, unsigned long, seqan::File > > > > >, seqan::Merger7>::insertStream(unsigned int)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate, seqan::Tuple, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended, seqan::Tuple, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended, seqan::Tuple, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, seqan::Tuple, seqan::Tag > >, void, unsigned long>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Tuple, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, seqan::Tuple, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value, seqan::Tuple, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, seqan::Tuple, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, seqan::Tuple, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, seqan::Tuple, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, seqan::Tuple, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Tuple, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, seqan::Tuple, seqan::Tag > >, seqan::Alloc > >(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, seqan::Size, seqan::Tuple, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size, seqan::Tuple, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, seqan::Tuple, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, seqan::Tuple, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, seqan::Tuple, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop, seqan::Tuple, seqan::Tag > >, seqan::MergeStreamComparer, seqan::Tuple, seqan::Tag >, seqan::_skew3ExtendComp, seqan::Tuple, seqan::Tag >, int> > >(seqan::PriorityType, seqan::Tuple, seqan::Tag > >, seqan::MergeStreamComparer, seqan::Tuple, seqan::Tag >, seqan::_skew3ExtendComp, seqan::Tuple, seqan::Tag >, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned long>, unsigned long, seqan::File > > > > >, seqan::Merger3>::operator++() [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger3.h:127:17: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned long>, unsigned long, seqan::File > > > > >, seqan::Merger3>::operator++() [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tag >, seqan::_skew3NComp >, seqan::Tag >, int> > >(seqan::PriorityType >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tag >, seqan::_skew3NComp >, seqan::Tag >, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘seqan::append >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > >, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > > >(seqan::Pool >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >&, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > >, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > > >(seqan::Pool >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >&, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > >, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > > >(seqan::Pool >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >&, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >&)bool [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In function ‘seqan::assign >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > >, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > > >(seqan::Pool >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >&, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >&)bool [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tag >, seqan::_skew7NComp >, seqan::Tag >, int> > >(seqan::PriorityType >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tag >, seqan::_skew7NComp >, seqan::Tag >, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘seqan::append >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > >, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > > >(seqan::Pool >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >&, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > >, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > > >(seqan::Pool >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >&, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > >, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > > >(seqan::Pool >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >&, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘seqan::operator<< >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > >, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > > >(seqan::Pool >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >&, seqan::Pipe >, seqan::Tag >, seqan::SorterSpec >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tag >, int> > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘seqan::Pipe >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >, seqan::Filter >, unsigned long> > >, seqan::Skew7>::process >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >, seqan::Filter >, unsigned long> > > >(seqan::Pipe >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >, seqan::Filter >, unsigned long> > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:345:26, inlined from ‘seqan::Pipe >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >, seqan::Filter >, unsigned long> > >, seqan::Skew7>::Pipe(seqan::Pipe >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >, seqan::Filter >, unsigned long> > >&)’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:312:11: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >, seqan::Filter >, unsigned long> > >, seqan::Skew7>::Pipe(seqan::Pipe >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >, seqan::Filter >, unsigned long> > >&)’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ In function ‘seqan::allocate >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, seqan::PageBucketExtended >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, unsigned long, seqan::AllocateStorage_>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::PageBucketExtended >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, void, unsigned long>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long)seqan::Value >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_ >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, seqan::Size >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type)seqan::Size >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::pop >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7NCompMulti >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >(seqan::PriorityType >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag > >, seqan::MergeStreamComparer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::_skew7NCompMulti >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> >, seqan::PriorityHeap>&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘seqan::Handler >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘seqan::Handler >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag >, seqan::AdapterSpec>, seqan::Handler >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Tag > >, seqan::Tag >::pop()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘seqan::Pool >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned long, seqan::Tag >, seqan::String >, unsigned long, seqan::Pair > > > >::operator++()’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13, inlined from ‘seqan::append >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > >, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned long, seqan::Tag >, seqan::String >, unsigned long, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned long, seqan::Tag >, seqan::String >, unsigned long, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > >, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned long, seqan::Tag >, seqan::String >, unsigned long, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned long, seqan::Tag >, seqan::String >, unsigned long, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘seqan::assign >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > >, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned long, seqan::Tag >, seqan::String >, unsigned long, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned long, seqan::Tag >, seqan::String >, unsigned long, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘seqan::operator<< >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > >, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned long, seqan::Tag >, seqan::String >, unsigned long, seqan::Pair > > > > >(seqan::Pool >, seqan::MapperSpec >, unsigned long>, unsigned long, seqan::File > > > >&, seqan::Pipe >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int>, unsigned long, seqan::File > > > >, seqan::Namer >, seqan::Tuple, 7u, seqan::BitPacked<16u, 16u> >, seqan::Tag >, int> > >, seqan::Filter >, unsigned long, seqan::Tag >, seqan::String >, unsigned long, seqan::Pair > > > >&)bool’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘seqan::Pipe, seqan::Alloc >, seqan::Owner > > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> >, seqan::Multi >, seqan::String > > >::process, seqan::Alloc >, seqan::Owner > > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> > >(seqan::Pipe, seqan::Alloc >, seqan::Owner > > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> >&)bool [clone .isra.0]’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/new: In member function ‘seqan::Pipe, seqan::Alloc >, seqan::Owner > > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> >, seqan::Multi >, seqan::String > > >::process, seqan::Alloc >, seqan::Owner > > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> > >(seqan::Pipe, seqan::Alloc >, seqan::Owner > > >, seqan::Source >, seqan::Caster, seqan::CasterReinterpret> >&)bool [clone .isra.0]’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ [ 88%] Linking CXX static library libseqan_flexlib.a cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar && /usr/bin/cmake -P CMakeFiles/seqan_flexlib.dir/cmake_clean_target.cmake cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar && /usr/bin/cmake -E cmake_link_script CMakeFiles/seqan_flexlib.dir/link.txt --verbose=1 /usr/bin/ar qc libseqan_flexlib.a CMakeFiles/seqan_flexlib.dir/seqan_flexlib.cpp.o /usr/bin/ranlib libseqan_flexlib.a make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 88%] Built target seqan_flexlib make -f extras/apps/seqan_flexbar/CMakeFiles/sflexQC.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/sflexQC.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar/CMakeFiles/sflexQC.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/seqan_flexbar/CMakeFiles/sflexQC.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/sflexQC.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 88%] Building CXX object extras/apps/seqan_flexbar/CMakeFiles/sflexQC.dir/seqan_flexbar.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar && /usr/bin/g++ -DFLEX_PROG=QUALITY_CONTROL -DSEQAN_DATE=\"\" -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/seqan_flexbar/CMakeFiles/sflexQC.dir/seqan_flexbar.cpp.o -MF CMakeFiles/sflexQC.dir/seqan_flexbar.cpp.o.d -o CMakeFiles/sflexQC.dir/seqan_flexbar.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexbar.cpp [ 90%] Linking CXX executable ../../../bin/sflexQC cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar && /usr/bin/cmake -E cmake_link_script CMakeFiles/sflexQC.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/sflexQC.dir/seqan_flexbar.cpp.o -o ../../../bin/sflexQC libseqan_flexlib.a -lrt -L/usr/lib64 -lz -L/usr/lib64 -lbz2 In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:279:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:289:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘operator<<’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘process.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:345:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘process.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘operator<<’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘process.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘process.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:423:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:432:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘pop’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘assign.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger3.h:127:17: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘operator++.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 90%] Built target sflexQC make -f extras/apps/seqan_flexbar/CMakeFiles/sflexAR.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/sflexAR.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar/CMakeFiles/sflexAR.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/seqan_flexbar/CMakeFiles/sflexAR.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/sflexAR.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 91%] Building CXX object extras/apps/seqan_flexbar/CMakeFiles/sflexAR.dir/seqan_flexbar.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar && /usr/bin/g++ -DFLEX_PROG=ADAPTER_REMOVAL -DSEQAN_DATE=\"\" -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/seqan_flexbar/CMakeFiles/sflexAR.dir/seqan_flexbar.cpp.o -MF CMakeFiles/sflexAR.dir/seqan_flexbar.cpp.o.d -o CMakeFiles/sflexAR.dir/seqan_flexbar.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexbar.cpp [ 91%] Linking CXX executable ../../../bin/sflexAR cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar && /usr/bin/cmake -E cmake_link_script CMakeFiles/sflexAR.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/sflexAR.dir/seqan_flexbar.cpp.o -o ../../../bin/sflexAR libseqan_flexlib.a -lrt -L/usr/lib64 -lz -L/usr/lib64 -lbz2 In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:279:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:289:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘operator<<’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘process.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:345:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘process.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘operator<<’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘process.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘process.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:423:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:432:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘pop’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘assign.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger3.h:127:17: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘operator++.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 91%] Built target sflexAR make -f extras/apps/seqan_flexbar/CMakeFiles/sflexDMulti.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/sflexDMulti.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar/CMakeFiles/sflexDMulti.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/seqan_flexbar/CMakeFiles/sflexDMulti.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/sflexDMulti.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 93%] Building CXX object extras/apps/seqan_flexbar/CMakeFiles/sflexDMulti.dir/seqan_flexbar.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar && /usr/bin/g++ -DFLEX_PROG=DEMULTIPLEXING -DSEQAN_DATE=\"\" -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/seqan_flexbar/CMakeFiles/sflexDMulti.dir/seqan_flexbar.cpp.o -MF CMakeFiles/sflexDMulti.dir/seqan_flexbar.cpp.o.d -o CMakeFiles/sflexDMulti.dir/seqan_flexbar.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexbar.cpp [ 93%] Linking CXX executable ../../../bin/sflexDMulti cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar && /usr/bin/cmake -E cmake_link_script CMakeFiles/sflexDMulti.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/sflexDMulti.dir/seqan_flexbar.cpp.o -o ../../../bin/sflexDMulti libseqan_flexlib.a -lrt -L/usr/lib64 -lz -L/usr/lib64 -lbz2 In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:279:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:289:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘operator<<’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘process.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:345:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘process.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘operator<<’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘process.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘process.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:423:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:432:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘pop’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘assign.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger3.h:127:17: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘operator++.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 93%] Built target sflexDMulti make -f extras/apps/seqan_flexbar/CMakeFiles/sflexFilter.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/sflexFilter.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar/CMakeFiles/sflexFilter.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/seqan_flexbar/CMakeFiles/sflexFilter.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/sflexFilter.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 95%] Building CXX object extras/apps/seqan_flexbar/CMakeFiles/sflexFilter.dir/seqan_flexbar.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar && /usr/bin/g++ -DFLEX_PROG=FILTERING -DSEQAN_DATE=\"\" -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/seqan_flexbar/CMakeFiles/sflexFilter.dir/seqan_flexbar.cpp.o -MF CMakeFiles/sflexFilter.dir/seqan_flexbar.cpp.o.d -o CMakeFiles/sflexFilter.dir/seqan_flexbar.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexbar.cpp [ 95%] Linking CXX executable ../../../bin/sflexFilter cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar && /usr/bin/cmake -E cmake_link_script CMakeFiles/sflexFilter.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/sflexFilter.dir/seqan_flexbar.cpp.o -o ../../../bin/sflexFilter libseqan_flexlib.a -lrt -L/usr/lib64 -lz -L/usr/lib64 -lbz2 In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:279:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:289:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘operator<<’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘process.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:345:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘process.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘operator<<’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘process.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘process.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:423:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:432:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘pop’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘assign.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger3.h:127:17: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘operator++.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 95%] Built target sflexFilter make -f extras/apps/seqan_flexbar/CMakeFiles/seqan_flexbar.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/seqan_flexbar.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar/CMakeFiles/seqan_flexbar.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/seqan_flexbar/CMakeFiles/seqan_flexbar.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/seqan_flexbar.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 95%] Building CXX object extras/apps/seqan_flexbar/CMakeFiles/seqan_flexbar.dir/seqan_flexbar.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar && /usr/bin/g++ -DSEQAN_DATE=\"\" -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/seqan_flexbar/CMakeFiles/seqan_flexbar.dir/seqan_flexbar.cpp.o -MF CMakeFiles/seqan_flexbar.dir/seqan_flexbar.cpp.o.d -o CMakeFiles/seqan_flexbar.dir/seqan_flexbar.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar/seqan_flexbar.cpp [ 96%] Linking CXX executable ../../../bin/seqan_flexbar cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar && /usr/bin/cmake -E cmake_link_script CMakeFiles/seqan_flexbar.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -fopenmp -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/seqan_flexbar.dir/seqan_flexbar.cpp.o -o ../../../bin/seqan_flexbar libseqan_flexlib.a -lrt -L/usr/lib64 -lz -L/usr/lib64 -lbz2 In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:279:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:289:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘operator<<’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘process.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7.h:345:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘process.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_filter.h:153:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17, inlined from ‘operator<<’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1395:22, inlined from ‘process.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/index_skew7_multi.h:328:26: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘process.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:423:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘insertStream’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger7.h:432:6: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘insertStream’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘pop’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pipe_namer.h:140:13, inlined from ‘append’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1357:13, inlined from ‘assign’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1388:42, inlined from ‘assign.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:1385:17: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘assign.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/priority_type_heap.h:333:8, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_sorter.h:311:18, inlined from ‘pop’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:664:24, inlined from ‘operator++’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/pipe/pool_base.h:919:15, inlined from ‘operator++.isra’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/index/pipe_merger3.h:127:17: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551536’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘operator++.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 96%] Built target seqan_flexbar make -f extras/apps/sgip/CMakeFiles/sgip.dir/build.make extras/apps/sgip/CMakeFiles/sgip.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/sgip /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/sgip /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/sgip/CMakeFiles/sgip.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/sgip/CMakeFiles/sgip.dir/build.make extras/apps/sgip/CMakeFiles/sgip.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 96%] Building CXX object extras/apps/sgip/CMakeFiles/sgip.dir/sgip.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/sgip && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -std=c++11 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/sgip/CMakeFiles/sgip.dir/sgip.cpp.o -MF CMakeFiles/sgip.dir/sgip.cpp.o.d -o CMakeFiles/sgip.dir/sgip.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/sgip/sgip.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/stream.h:86, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types.h:43, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/sgip/sgip.cpp:29: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/debug_test_system.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_debug.h:52, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:49, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/sgip/sgip.cpp:27: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/sgip/sgip_base.h:33, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/sgip/sgip.cpp:33: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ [ 98%] Linking CXX executable ../../../bin/sgip cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/sgip && /usr/bin/cmake -E cmake_link_script CMakeFiles/sgip.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -std=c++11 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/sgip.dir/sgip.cpp.o -o ../../../bin/sgip -lrt In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘obtainId’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_idmanager.h:205:9, inlined from ‘addVertex’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_undirected.h:394:33, inlined from ‘_createVertices’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_interface.h:709:65, inlined from ‘addEdges’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_interface.h:759:37, inlined from ‘_createUndir’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/sgip/sgip_base.h:430:13: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551608’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_createUndir’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘obtainId’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_idmanager.h:205:9, inlined from ‘addVertex’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_undirected.h:394:33, inlined from ‘_createVertices’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_interface.h:709:65, inlined from ‘addEdges’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_interface.h:760:23, inlined from ‘_createUndir’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/sgip/sgip_base.h:430:13: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551608’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_createUndir’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toHtml’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/tool_doc.h:284:34: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551568’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In member function ‘_toHtml’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘obtainId’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_idmanager.h:205:9, inlined from ‘addVertex’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:534:33, inlined from ‘_createVertices’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_interface.h:709:65, inlined from ‘addEdges’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_interface.h:759:37, inlined from ‘_createGraph.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/sgip/sgip.h:99:13: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551608’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_createGraph.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘obtainId’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_idmanager.h:205:9, inlined from ‘addVertex’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:534:33, inlined from ‘_createVertices’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_interface.h:709:65, inlined from ‘addEdges’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_interface.h:760:23, inlined from ‘_createGraph.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/sgip/sgip.h:99:13: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551608’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_createGraph.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1821:1, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘obtainId’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_idmanager.h:205:9, inlined from ‘addEdge’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_impl_directed.h:617:19, inlined from ‘addEdges’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_types/graph_interface.h:764:10, inlined from ‘_createGraph.isra’ at /builddir/build/BUILD/seqan-1.4.2/extras/apps/sgip/sgip.h:99:13: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551608’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_createGraph.isra’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 98%] Built target sgip make -f extras/apps/variant_comp/CMakeFiles/variant_comp.dir/build.make extras/apps/variant_comp/CMakeFiles/variant_comp.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/variant_comp /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/variant_comp /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/variant_comp/CMakeFiles/variant_comp.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make -f extras/apps/variant_comp/CMakeFiles/variant_comp.dir/build.make extras/apps/variant_comp/CMakeFiles/variant_comp.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 98%] Building CXX object extras/apps/variant_comp/CMakeFiles/variant_comp.dir/variant_comp.cpp.o cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/variant_comp && /usr/bin/g++ -DSEQAN_ENABLE_TESTING=0 -DSEQAN_HAS_EXECINFO=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/builddir/build/BUILD/seqan-1.4.2/extras/include -I/builddir/build/BUILD/seqan-1.4.2/core/include -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -MD -MT extras/apps/variant_comp/CMakeFiles/variant_comp.dir/variant_comp.cpp.o -MF CMakeFiles/variant_comp.dir/variant_comp.cpp.o.d -o CMakeFiles/variant_comp.dir/variant_comp.cpp.o -c /builddir/build/BUILD/seqan-1.4.2/extras/apps/variant_comp/variant_comp.cpp In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier.h:68, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:48, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/variant_comp/variant_comp.cpp:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:80:36: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 80 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/variant_comp/variant_comp.cpp:22: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:115:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 115 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:151:37: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 151 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:220:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 220 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:229:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 229 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:239:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 239 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:249:45: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 249 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:259:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 259 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:268:46: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 268 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/modifier/modifier_functors.h:280:47: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 280 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file.h:117: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/file/string_external.h:1436:51: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 1436 | struct testIODone : public ::std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:46, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:47, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/variant_comp/variant_comp.cpp:33: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:342:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 342 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms.h:47: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_algorithms/graph_algorithm.h:793:23: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 793 | public ::std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/extras/apps/variant_comp/variant_comp.cpp:35: /builddir/build/BUILD/seqan-1.4.2/extras/apps/variant_comp/variant_comp.h:238:37: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 238 | struct LessGPosSize : public ::std::binary_function < TIndel, TIndel, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/variant_comp/variant_comp.h:256:33: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 256 | struct LessGPos : public ::std::binary_function < TVariant, TVariant, bool > | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/variant_comp/variant_comp.h: In function ‘bool seqan::compareIndelPair(TIndel&, TIndel&, TOptions&)’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/variant_comp/variant_comp.h:278:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 278 | if(options.genotypeAware && predIndel.genotype != refIndel.genotype) | ^~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/variant_comp/variant_comp.h:281:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 281 | int sizeTol = int((double)abs(refIndel.indelSize) * options.sizeTolerance); | ^~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/variant_comp/variant_comp.h: In function ‘int seqan::compareIndels(TIndelSet&, TIndelSet&, TGenome&, TGenomeIDs&, TOptions&)’: /builddir/build/BUILD/seqan-1.4.2/extras/apps/variant_comp/variant_comp.h:477:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 477 | for(TIndelIt it = begin(refIndels); it != end(refIndels); ++it) | ^~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/variant_comp/variant_comp.h:479:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 479 | for(TIndelIt it = begin(predIndels); it != end(predIndels); ++it) | ^~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/graph_align.h:55: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h: In instantiation of ‘void seqan::findIntervals(const Graph&, const TPropertyMap&, TVertexDescriptor&, TValue, TValue, String&) [with TSpec = Directed >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TVertexDescriptor = unsigned int; TValue = int; TCargo = int]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:1917:15: required from ‘void seqan::findIntervals(const Graph&, const TPropertyMap&, TValue, TValue, String&) [with TSpec = Directed >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TValue = int; TCargo = int]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/variant_comp/variant_comp.h:479:9: note: 1917 | findIntervals(g, pm, act_knot, query_begin, query_end, result); /builddir/build/BUILD/seqan-1.4.2/extras/apps/variant_comp/variant_comp.h:479:9: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:1898:15: required from ‘void seqan::findIntervals(const IntervalTree&, TValue, TValue, String&) [with TValue = int; TCargo = int]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/variant_comp/variant_comp.h:479:9: note: 1898 | findIntervals(tree.g,tree.pm,query_begin,query_end,result); /builddir/build/BUILD/seqan-1.4.2/extras/apps/variant_comp/variant_comp.h:479:9: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/variant_comp/variant_comp.h:582:17: required from ‘int seqan::compareIndels(TIndelSet&, TIndelSet&, TGenome&, TGenomeIDs&, TOptions&) [with TIndelSet = StringSet; TGenome = StringSet, Alloc<> > >; TGenomeIDs = String > >; TOptions = IndelCompareOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/extras/apps/variant_comp/variant_comp.h:479:9: note: 582 | findIntervals(itree,beginPoint,endPoint,intersectingIntervals); /builddir/build/BUILD/seqan-1.4.2/extras/apps/variant_comp/variant_comp.h:479:9: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/variant_comp/variant_comp.cpp:834:31: required from here /builddir/build/BUILD/seqan-1.4.2/extras/apps/variant_comp/variant_comp.h:479:9: note: 834 | int result = compareIndels(refIndels,predictedIndels,genomes,genomeIDs,options); /builddir/build/BUILD/seqan-1.4.2/extras/apps/variant_comp/variant_comp.h:479:9: note: | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:1949:26: warning: implicitly-declared ‘seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)’ is deprecated [-Wdeprecated-copy] 1949 | act_prop = property(pm,act_knot); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: because ‘seqan::IntervalTreeNode, seqan::StorePointsOnly>’ has user-provided ‘seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]’ 398 | IntervalTreeNode(IntervalTreeNode const & other): | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:1961:43: warning: implicitly-declared ‘seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)’ is deprecated [-Wdeprecated-copy] 1961 | next_prop = property(pm,targetVertex(it)); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: because ‘seqan::IntervalTreeNode, seqan::StorePointsOnly>’ has user-provided ‘seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]’ 398 | IntervalTreeNode(IntervalTreeNode const & other): | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:1982:51: warning: implicitly-declared ‘seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)’ is deprecated [-Wdeprecated-copy] 1982 | next_prop = property(pm,targetVertex(it)); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: because ‘seqan::IntervalTreeNode, seqan::StorePointsOnly>’ has user-provided ‘seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]’ 398 | IntervalTreeNode(IntervalTreeNode const & other): | ^~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_fundamental.h:79, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:58, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence.h:51, from /builddir/build/BUILD/seqan-1.4.2/extras/apps/variant_comp/variant_comp.cpp:29: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h: In instantiation of ‘void seqan::_arrayCopyForwardPointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType]’: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1542:29: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 1542 | _arrayCopyForwardPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1398:21: required from ‘void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 1398 | arrayCopyForward(source_begin, source_end, target_begin); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1429:31: required from ‘void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = SimpleType; TValueTarget = SimpleType]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 1429 | _arrayConstructCopyPointer(source_begin, source_end, target_begin, typename IsSimple::Type() ); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1840:27: required from ‘void seqan::_reserveStorage(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 1840 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard())); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20: required from ‘typename seqan::Size >::Type seqan::reserve(String&, TSize_, Tag) [with TValue = SimpleType; TSpec = Alloc<>; TSize_ = long unsigned int; TExpand = TagExact_; typename Size >::Type = long unsigned int]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 1855 | _reserveStorage(seq, new_capacity, tag); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:131:16: required from ‘seqan::String >::String(const seqan::String >&) [with TValue = seqan::SimpleType; TSpec = void]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 131 | reserve(*this, std::min(capacity(source), computeGenerousCapacity(source, length(source))), Exact()); /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/extras/apps/variant_comp/variant_comp.cpp:444:39: required from ‘int readGFF(const char*, TIndelSet&, TSnpSet&, TGenomeMap&, TOptions&) [with TIndelSet = seqan::StringSet; TSnpSet = seqan::StringSet; TGenomeMap = std::map >, unsigned int>; TOptions = seqan::IndelCompareOptions<>]’ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 444 | TIndel indel = {0,0,0,0,0,0,0,0,0,0,0,0,0,0,0}; /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ^ /builddir/build/BUILD/seqan-1.4.2/extras/apps/variant_comp/variant_comp.cpp:815:16: required from here /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: 815 | if (readGFF(toCString(options.inputReference), refIndels, refSnps, gIdStringToIdNumMap, options) > 0) /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/misc/misc_interval_tree.h:398:9: note: | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/array_construct_destruct.h:1521:19: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘class seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 1521 | ::std::memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_alphabet.h:84, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:68: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/alphabet_simple_type.h:116:7: note: ‘class seqan::SimpleType’ declared here 116 | class SimpleType | ^~~~~~~~~~ In file included from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/basic_allocator.h:53, from /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic.h:74: In function ‘seqan::allocate, std::allocator >, seqan::Alloc >, std::__cxx11::basic_string, std::allocator >, unsigned long, seqan::AllocateStorage_>(seqan::String, std::allocator >, seqan::Alloc >&, std::__cxx11::basic_string, std::allocator >*&, unsigned long, seqan::Tag const&)void’, inlined from ‘seqan::_allocateStorage, std::allocator >, void, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘seqan::_reallocateStorage, std::allocator >, seqan::Alloc, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Value, std::allocator >, seqan::Alloc >, 0>::Type*’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘seqan::_reserveStorage, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘seqan::reserve, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘seqan::_Resize_String >::resize_, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&, seqan::Size, std::allocator >, seqan::Alloc > >::Type)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc, unsigned long, seqan::TagGenerous_>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long, seqan::Tag)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘seqan::resize, std::allocator >, seqan::Alloc >, unsigned long>(seqan::String, std::allocator >, seqan::Alloc >&, unsigned long)seqan::Size, std::allocator >, seqan::Alloc > >::Type’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘seqan::eraseBack, std::allocator >, seqan::Alloc > >(seqan::String, std::allocator >, seqan::Alloc >&)void’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/exception_ptr.h:38, from /usr/include/c++/14/exception:166, from /usr/include/c++/14/ios:41: /usr/include/c++/14/new: In function ‘seqan::_toText, std::allocator > >(std::__cxx11::basic_string, std::allocator > const&)std::__cxx11::basic_string, std::allocator >’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new(unsigned long)’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^~~~~~~~ [100%] Linking CXX executable ../../../bin/variant_comp cd /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/variant_comp && /usr/bin/cmake -E cmake_link_script CMakeFiles/variant_comp.dir/link.txt --verbose=1 /usr/bin/g++ -std=c++14 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -lemon -W -Wall -Wno-long-long -fstrict-aliasing -Wstrict-aliasing -pedantic -Wno-variadic-macros -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -fPIC -DSEQAN_ENABLE_DEBUG=0 -static-libgcc -static-libstdc++ -rdynamic CMakeFiles/variant_comp.dir/variant_comp.cpp.o -o ../../../bin/variant_comp -lrt In function ‘allocate’, inlined from ‘_allocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_alloc.h:385:13, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1685:28, inlined from ‘_reallocateStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1730:30, inlined from ‘_reserveStorage’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1835:83, inlined from ‘reserve’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1855:20, inlined from ‘resize_’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1887:45, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/string_base.h:1952:50, inlined from ‘resize’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2143:18, inlined from ‘eraseBack’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/sequence/sequence_interface.h:2337:8, inlined from ‘_toText’ at /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/arg_parse/arg_parse_ctd_support.h:88:30: /builddir/build/BUILD/seqan-1.4.2/core/include/seqan/basic/allocator_interface.h:297:35: warning: argument 1 value ‘18446744073709551552’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 297 | */ data = (TValue *) operator new(count * sizeof(TValue)); | ^ /usr/include/c++/14/new: In function ‘_toText’: /usr/include/c++/14/new:131:26: note: in a call to allocation function ‘operator new’ declared here 131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [100%] Built target variant_comp make[1]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/cmake -E cmake_progress_start /builddir/build/BUILD/seqan-1.4.2/build/Release/CMakeFiles 0 + RPM_EC=0 ++ jobs -p + exit 0 Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.WZYJ2J + umask 022 + cd /builddir/build/BUILD + '[' /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64 '!=' / ']' + rm -rf /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64 ++ dirname /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64 + mkdir -p /builddir/build/BUILDROOT + mkdir /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64 + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer ' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer ' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules ' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules ' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-Wl,-z,relro -Clink-arg=-Wl,-z,now -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn' + export RUSTFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd seqan-1.4.2 + /usr/bin/make install DESTDIR=/builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64 'INSTALL=/usr/bin/install -p' -C build/Release make: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/cmake -S/builddir/build/BUILD/seqan-1.4.2 -B/builddir/build/BUILD/seqan-1.4.2/build/Release --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /builddir/build/BUILD/seqan-1.4.2/build/Release/CMakeFiles /builddir/build/BUILD/seqan-1.4.2/build/Release//CMakeFiles/progress.marks /usr/bin/make -f CMakeFiles/Makefile2 all make[1]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f core/CMakeFiles/seqan_core.dir/build.make core/CMakeFiles/seqan_core.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core /builddir/build/BUILD/seqan-1.4.2/build/Release/core/CMakeFiles/seqan_core.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f core/CMakeFiles/seqan_core.dir/build.make core/CMakeFiles/seqan_core.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'core/CMakeFiles/seqan_core.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 0%] Built target seqan_core /usr/bin/make -f core/apps/dfi/CMakeFiles/dfi.dir/build.make core/apps/dfi/CMakeFiles/dfi.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/dfi /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/dfi /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/dfi/CMakeFiles/dfi.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f core/apps/dfi/CMakeFiles/dfi.dir/build.make core/apps/dfi/CMakeFiles/dfi.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'core/apps/dfi/CMakeFiles/dfi.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 1%] Built target dfi /usr/bin/make -f core/apps/fiona/CMakeFiles/compute_gain.dir/build.make core/apps/fiona/CMakeFiles/compute_gain.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/fiona /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/fiona/CMakeFiles/compute_gain.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f core/apps/fiona/CMakeFiles/compute_gain.dir/build.make core/apps/fiona/CMakeFiles/compute_gain.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'core/apps/fiona/CMakeFiles/compute_gain.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 3%] Built target compute_gain /usr/bin/make -f core/apps/fiona/CMakeFiles/fiona.dir/build.make core/apps/fiona/CMakeFiles/fiona.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/fiona /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/fiona/CMakeFiles/fiona.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f core/apps/fiona/CMakeFiles/fiona.dir/build.make core/apps/fiona/CMakeFiles/fiona.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'core/apps/fiona/CMakeFiles/fiona.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 4%] Built target fiona /usr/bin/make -f core/apps/fiona/CMakeFiles/fiona_illumina.dir/build.make core/apps/fiona/CMakeFiles/fiona_illumina.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/fiona /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/fiona /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/fiona/CMakeFiles/fiona_illumina.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f core/apps/fiona/CMakeFiles/fiona_illumina.dir/build.make core/apps/fiona/CMakeFiles/fiona_illumina.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'core/apps/fiona/CMakeFiles/fiona_illumina.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 6%] Built target fiona_illumina /usr/bin/make -f core/apps/mason/CMakeFiles/mason.dir/build.make core/apps/mason/CMakeFiles/mason.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/mason /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/mason /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/mason/CMakeFiles/mason.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f core/apps/mason/CMakeFiles/mason.dir/build.make core/apps/mason/CMakeFiles/mason.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'core/apps/mason/CMakeFiles/mason.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 8%] Built target mason /usr/bin/make -f core/apps/micro_razers/CMakeFiles/micro_razers.dir/build.make core/apps/micro_razers/CMakeFiles/micro_razers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/micro_razers /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/micro_razers /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/micro_razers/CMakeFiles/micro_razers.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f core/apps/micro_razers/CMakeFiles/micro_razers.dir/build.make core/apps/micro_razers/CMakeFiles/micro_razers.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'core/apps/micro_razers/CMakeFiles/micro_razers.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 9%] Built target micro_razers /usr/bin/make -f core/apps/pair_align/CMakeFiles/pair_align.dir/build.make core/apps/pair_align/CMakeFiles/pair_align.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/pair_align /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/pair_align /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/pair_align/CMakeFiles/pair_align.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f core/apps/pair_align/CMakeFiles/pair_align.dir/build.make core/apps/pair_align/CMakeFiles/pair_align.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'core/apps/pair_align/CMakeFiles/pair_align.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 11%] Built target pair_align /usr/bin/make -f core/apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build.make core/apps/rabema/CMakeFiles/rabema_prepare_sam.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/rabema /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/rabema/CMakeFiles/rabema_prepare_sam.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f core/apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build.make core/apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'core/apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 12%] Built target rabema_prepare_sam /usr/bin/make -f core/apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build.make core/apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/rabema /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f core/apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build.make core/apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'core/apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 14%] Built target rabema_build_gold_standard /usr/bin/make -f core/apps/rabema/CMakeFiles/rabema_evaluate.dir/build.make core/apps/rabema/CMakeFiles/rabema_evaluate.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/rabema /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/rabema/CMakeFiles/rabema_evaluate.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f core/apps/rabema/CMakeFiles/rabema_evaluate.dir/build.make core/apps/rabema/CMakeFiles/rabema_evaluate.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'core/apps/rabema/CMakeFiles/rabema_evaluate.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 16%] Built target rabema_evaluate /usr/bin/make -f core/apps/rabema/CMakeFiles/rabema_do_search.dir/build.make core/apps/rabema/CMakeFiles/rabema_do_search.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/rabema /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/rabema /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/rabema/CMakeFiles/rabema_do_search.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f core/apps/rabema/CMakeFiles/rabema_do_search.dir/build.make core/apps/rabema/CMakeFiles/rabema_do_search.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'core/apps/rabema/CMakeFiles/rabema_do_search.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 16%] Built target rabema_do_search /usr/bin/make -f core/apps/razers/CMakeFiles/razers.dir/build.make core/apps/razers/CMakeFiles/razers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/razers /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/razers /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/razers/CMakeFiles/razers.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f core/apps/razers/CMakeFiles/razers.dir/build.make core/apps/razers/CMakeFiles/razers.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'core/apps/razers/CMakeFiles/razers.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 19%] Built target razers /usr/bin/make -f core/apps/razers2/CMakeFiles/razers2.dir/build.make core/apps/razers2/CMakeFiles/razers2.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/razers2 /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/razers2 /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/razers2/CMakeFiles/razers2.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f core/apps/razers2/CMakeFiles/razers2.dir/build.make core/apps/razers2/CMakeFiles/razers2.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'core/apps/razers2/CMakeFiles/razers2.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 20%] Built target razers2 /usr/bin/make -f core/apps/sak/CMakeFiles/sak.dir/build.make core/apps/sak/CMakeFiles/sak.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/sak /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/sak /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/sak/CMakeFiles/sak.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f core/apps/sak/CMakeFiles/sak.dir/build.make core/apps/sak/CMakeFiles/sak.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'core/apps/sak/CMakeFiles/sak.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 22%] Built target sak /usr/bin/make -f core/apps/sam2matrix/CMakeFiles/sam2matrix.dir/build.make core/apps/sam2matrix/CMakeFiles/sam2matrix.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/sam2matrix /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/sam2matrix /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/sam2matrix/CMakeFiles/sam2matrix.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f core/apps/sam2matrix/CMakeFiles/sam2matrix.dir/build.make core/apps/sam2matrix/CMakeFiles/sam2matrix.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'core/apps/sam2matrix/CMakeFiles/sam2matrix.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 24%] Built target sam2matrix /usr/bin/make -f core/apps/samcat/CMakeFiles/samcat.dir/build.make core/apps/samcat/CMakeFiles/samcat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/samcat /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/samcat /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/samcat/CMakeFiles/samcat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f core/apps/samcat/CMakeFiles/samcat.dir/build.make core/apps/samcat/CMakeFiles/samcat.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'core/apps/samcat/CMakeFiles/samcat.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 25%] Built target samcat /usr/bin/make -f core/apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/build.make core/apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/seqan_tcoffee /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/seqan_tcoffee /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f core/apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/build.make core/apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'core/apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 25%] Built target seqan_tcoffee /usr/bin/make -f core/apps/seqcons/CMakeFiles/seqcons.dir/build.make core/apps/seqcons/CMakeFiles/seqcons.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/seqcons /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/seqcons /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/seqcons/CMakeFiles/seqcons.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f core/apps/seqcons/CMakeFiles/seqcons.dir/build.make core/apps/seqcons/CMakeFiles/seqcons.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'core/apps/seqcons/CMakeFiles/seqcons.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 27%] Built target seqcons /usr/bin/make -f core/apps/snp_store/CMakeFiles/snp_store.dir/build.make core/apps/snp_store/CMakeFiles/snp_store.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/snp_store /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/snp_store /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/snp_store/CMakeFiles/snp_store.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f core/apps/snp_store/CMakeFiles/snp_store.dir/build.make core/apps/snp_store/CMakeFiles/snp_store.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'core/apps/snp_store/CMakeFiles/snp_store.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 29%] Built target snp_store /usr/bin/make -f core/apps/splazers/CMakeFiles/splazers.dir/build.make core/apps/splazers/CMakeFiles/splazers.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/splazers /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/splazers /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/splazers/CMakeFiles/splazers.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f core/apps/splazers/CMakeFiles/splazers.dir/build.make core/apps/splazers/CMakeFiles/splazers.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'core/apps/splazers/CMakeFiles/splazers.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 29%] Built target splazers /usr/bin/make -f core/apps/stellar/CMakeFiles/stellar.dir/build.make core/apps/stellar/CMakeFiles/stellar.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/stellar /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/stellar /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/stellar/CMakeFiles/stellar.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f core/apps/stellar/CMakeFiles/stellar.dir/build.make core/apps/stellar/CMakeFiles/stellar.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'core/apps/stellar/CMakeFiles/stellar.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 30%] Built target stellar /usr/bin/make -f core/apps/tree_recon/CMakeFiles/tree_recon.dir/build.make core/apps/tree_recon/CMakeFiles/tree_recon.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/tree_recon /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/tree_recon /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/tree_recon/CMakeFiles/tree_recon.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f core/apps/tree_recon/CMakeFiles/tree_recon.dir/build.make core/apps/tree_recon/CMakeFiles/tree_recon.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'core/apps/tree_recon/CMakeFiles/tree_recon.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 32%] Built target tree_recon /usr/bin/make -f extras/CMakeFiles/seqan_extras.dir/build.make extras/CMakeFiles/seqan_extras.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/CMakeFiles/seqan_extras.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/CMakeFiles/seqan_extras.dir/build.make extras/CMakeFiles/seqan_extras.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/CMakeFiles/seqan_extras.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 32%] Built target seqan_extras /usr/bin/make -f extras/apps/alf/CMakeFiles/alf.dir/build.make extras/apps/alf/CMakeFiles/alf.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/alf /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/alf /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/alf/CMakeFiles/alf.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/alf/CMakeFiles/alf.dir/build.make extras/apps/alf/CMakeFiles/alf.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/alf/CMakeFiles/alf.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 32%] Built target alf /usr/bin/make -f extras/apps/breakpoint_calculator/CMakeFiles/breakpoint_calculator.dir/build.make extras/apps/breakpoint_calculator/CMakeFiles/breakpoint_calculator.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/breakpoint_calculator /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/breakpoint_calculator /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/breakpoint_calculator/CMakeFiles/breakpoint_calculator.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/breakpoint_calculator/CMakeFiles/breakpoint_calculator.dir/build.make extras/apps/breakpoint_calculator/CMakeFiles/breakpoint_calculator.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/breakpoint_calculator/CMakeFiles/breakpoint_calculator.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 32%] Built target breakpoint_calculator /usr/bin/make -f extras/apps/bs_tools/CMakeFiles/bisar.dir/build.make extras/apps/bs_tools/CMakeFiles/bisar.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/bs_tools /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/bs_tools/CMakeFiles/bisar.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/bs_tools/CMakeFiles/bisar.dir/build.make extras/apps/bs_tools/CMakeFiles/bisar.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/bs_tools/CMakeFiles/bisar.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 33%] Built target bisar /usr/bin/make -f extras/apps/bs_tools/CMakeFiles/casbar.dir/build.make extras/apps/bs_tools/CMakeFiles/casbar.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/bs_tools /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/bs_tools/CMakeFiles/casbar.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/bs_tools/CMakeFiles/casbar.dir/build.make extras/apps/bs_tools/CMakeFiles/casbar.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/bs_tools/CMakeFiles/casbar.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 35%] Built target casbar /usr/bin/make -f extras/apps/bs_tools/CMakeFiles/four2three.dir/build.make extras/apps/bs_tools/CMakeFiles/four2three.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/bs_tools /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/bs_tools /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/bs_tools/CMakeFiles/four2three.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/bs_tools/CMakeFiles/four2three.dir/build.make extras/apps/bs_tools/CMakeFiles/four2three.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/bs_tools/CMakeFiles/four2three.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 37%] Built target four2three /usr/bin/make -f extras/apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/build.make extras/apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/fx_tools /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/fx_tools /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/build.make extras/apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 38%] Built target fx_bam_coverage /usr/bin/make -f extras/apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/build.make extras/apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/fx_tools /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/fx_tools /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/build.make extras/apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 38%] Built target fx_fastq_stats /usr/bin/make -f extras/apps/gustaf/CMakeFiles/gustaf.dir/build.make extras/apps/gustaf/CMakeFiles/gustaf.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/gustaf /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/gustaf /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/gustaf/CMakeFiles/gustaf.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/gustaf/CMakeFiles/gustaf.dir/build.make extras/apps/gustaf/CMakeFiles/gustaf.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/gustaf/CMakeFiles/gustaf.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 40%] Built target gustaf /usr/bin/make -f extras/apps/insegt/CMakeFiles/insegt.dir/build.make extras/apps/insegt/CMakeFiles/insegt.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/insegt /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/insegt /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/insegt/CMakeFiles/insegt.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/insegt/CMakeFiles/insegt.dir/build.make extras/apps/insegt/CMakeFiles/insegt.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/insegt/CMakeFiles/insegt.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 41%] Built target insegt /usr/bin/make -f extras/apps/mason2/CMakeFiles/mason_sim.dir/build.make extras/apps/mason2/CMakeFiles/mason_sim.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2/CMakeFiles/mason_sim.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/mason2/CMakeFiles/mason_sim.dir/build.make extras/apps/mason2/CMakeFiles/mason_sim.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/mason2/CMakeFiles/mason_sim.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 50%] Built target mason_sim /usr/bin/make -f extras/apps/mason2/CMakeFiles/mason_genome.dir/build.make extras/apps/mason2/CMakeFiles/mason_genome.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2/CMakeFiles/mason_genome.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/mason2/CMakeFiles/mason_genome.dir/build.make extras/apps/mason2/CMakeFiles/mason_genome.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/mason2/CMakeFiles/mason_genome.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 51%] Built target mason_genome /usr/bin/make -f extras/apps/mason2/CMakeFiles/mason_methylation.dir/build.make extras/apps/mason2/CMakeFiles/mason_methylation.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2/CMakeFiles/mason_methylation.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/mason2/CMakeFiles/mason_methylation.dir/build.make extras/apps/mason2/CMakeFiles/mason_methylation.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/mason2/CMakeFiles/mason_methylation.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 51%] Built target mason_methylation /usr/bin/make -f extras/apps/mason2/CMakeFiles/mason_frag_sequencing.dir/build.make extras/apps/mason2/CMakeFiles/mason_frag_sequencing.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2/CMakeFiles/mason_frag_sequencing.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/mason2/CMakeFiles/mason_frag_sequencing.dir/build.make extras/apps/mason2/CMakeFiles/mason_frag_sequencing.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/mason2/CMakeFiles/mason_frag_sequencing.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 53%] Built target mason_frag_sequencing /usr/bin/make -f extras/apps/mason2/CMakeFiles/mason_variator.dir/build.make extras/apps/mason2/CMakeFiles/mason_variator.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2/CMakeFiles/mason_variator.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/mason2/CMakeFiles/mason_variator.dir/build.make extras/apps/mason2/CMakeFiles/mason_variator.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/mason2/CMakeFiles/mason_variator.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 54%] Built target mason_variator /usr/bin/make -f extras/apps/mason2/CMakeFiles/mason_materializer.dir/build.make extras/apps/mason2/CMakeFiles/mason_materializer.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2/CMakeFiles/mason_materializer.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/mason2/CMakeFiles/mason_materializer.dir/build.make extras/apps/mason2/CMakeFiles/mason_materializer.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/mason2/CMakeFiles/mason_materializer.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 56%] Built target mason_materializer /usr/bin/make -f extras/apps/mason2/CMakeFiles/mason_simulator.dir/build.make extras/apps/mason2/CMakeFiles/mason_simulator.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2/CMakeFiles/mason_simulator.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/mason2/CMakeFiles/mason_simulator.dir/build.make extras/apps/mason2/CMakeFiles/mason_simulator.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/mason2/CMakeFiles/mason_simulator.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 58%] Built target mason_simulator /usr/bin/make -f extras/apps/mason2/CMakeFiles/mason_splicing.dir/build.make extras/apps/mason2/CMakeFiles/mason_splicing.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2/CMakeFiles/mason_splicing.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/mason2/CMakeFiles/mason_splicing.dir/build.make extras/apps/mason2/CMakeFiles/mason_splicing.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/mason2/CMakeFiles/mason_splicing.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 59%] Built target mason_splicing /usr/bin/make -f extras/apps/mason2/CMakeFiles/mason_tests.dir/build.make extras/apps/mason2/CMakeFiles/mason_tests.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2 /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/mason2/CMakeFiles/mason_tests.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/mason2/CMakeFiles/mason_tests.dir/build.make extras/apps/mason2/CMakeFiles/mason_tests.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/mason2/CMakeFiles/mason_tests.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 61%] Built target mason_tests /usr/bin/make -f extras/apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build.make extras/apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/ngs_roi /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build.make extras/apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 61%] Built target roi_plot_thumbnails /usr/bin/make -f extras/apps/ngs_roi/CMakeFiles/bam2roi.dir/build.make extras/apps/ngs_roi/CMakeFiles/bam2roi.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/ngs_roi /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/ngs_roi/CMakeFiles/bam2roi.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/ngs_roi/CMakeFiles/bam2roi.dir/build.make extras/apps/ngs_roi/CMakeFiles/bam2roi.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/ngs_roi/CMakeFiles/bam2roi.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 64%] Built target bam2roi /usr/bin/make -f extras/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build.make extras/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/ngs_roi /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/ngs_roi /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build.make extras/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 67%] Built target roi_feature_projection /usr/bin/make -f extras/apps/param_chooser/CMakeFiles/param_chooser.dir/build.make extras/apps/param_chooser/CMakeFiles/param_chooser.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/param_chooser /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/param_chooser/CMakeFiles/param_chooser.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/param_chooser/CMakeFiles/param_chooser.dir/build.make extras/apps/param_chooser/CMakeFiles/param_chooser.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/param_chooser/CMakeFiles/param_chooser.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 69%] Built target param_chooser /usr/bin/make -f extras/apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build.make extras/apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/param_chooser /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/param_chooser /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build.make extras/apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 70%] Built target test_funcs_param_chooser /usr/bin/make -f extras/apps/razers3/CMakeFiles/razers3.dir/build.make extras/apps/razers3/CMakeFiles/razers3.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3 /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/razers3 /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/razers3/CMakeFiles/razers3.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/razers3/CMakeFiles/razers3.dir/build.make extras/apps/razers3/CMakeFiles/razers3.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/razers3/CMakeFiles/razers3.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 72%] Built target razers3 /usr/bin/make -f extras/apps/razers3/CMakeFiles/razers3_simulate_reads.dir/build.make extras/apps/razers3/CMakeFiles/razers3_simulate_reads.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3 /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/razers3 /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/razers3/CMakeFiles/razers3_simulate_reads.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/razers3/CMakeFiles/razers3_simulate_reads.dir/build.make extras/apps/razers3/CMakeFiles/razers3_simulate_reads.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/razers3/CMakeFiles/razers3_simulate_reads.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 74%] Built target razers3_simulate_reads /usr/bin/make -f extras/apps/razers3/CMakeFiles/razers3_quality2prob.dir/build.make extras/apps/razers3/CMakeFiles/razers3_quality2prob.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/razers3 /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/razers3 /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/razers3/CMakeFiles/razers3_quality2prob.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/razers3/CMakeFiles/razers3_quality2prob.dir/build.make extras/apps/razers3/CMakeFiles/razers3_quality2prob.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/razers3/CMakeFiles/razers3_quality2prob.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 75%] Built target razers3_quality2prob /usr/bin/make -f extras/apps/rep_sep/CMakeFiles/rep_sep.dir/build.make extras/apps/rep_sep/CMakeFiles/rep_sep.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/rep_sep /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/rep_sep /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/rep_sep/CMakeFiles/rep_sep.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/rep_sep/CMakeFiles/rep_sep.dir/build.make extras/apps/rep_sep/CMakeFiles/rep_sep.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/rep_sep/CMakeFiles/rep_sep.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 77%] Built target rep_sep /usr/bin/make -f extras/apps/searchjoin/CMakeFiles/search.dir/build.make extras/apps/searchjoin/CMakeFiles/search.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/searchjoin /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/searchjoin/CMakeFiles/search.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/searchjoin/CMakeFiles/search.dir/build.make extras/apps/searchjoin/CMakeFiles/search.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/searchjoin/CMakeFiles/search.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 79%] Built target search /usr/bin/make -f extras/apps/searchjoin/CMakeFiles/join.dir/build.make extras/apps/searchjoin/CMakeFiles/join.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/searchjoin /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/searchjoin /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/searchjoin/CMakeFiles/join.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/searchjoin/CMakeFiles/join.dir/build.make extras/apps/searchjoin/CMakeFiles/join.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/searchjoin/CMakeFiles/join.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 80%] Built target join /usr/bin/make -f extras/apps/seqan_flexbar/CMakeFiles/test_sflex_demultiplex.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/test_sflex_demultiplex.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar/CMakeFiles/test_sflex_demultiplex.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/seqan_flexbar/CMakeFiles/test_sflex_demultiplex.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/test_sflex_demultiplex.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/seqan_flexbar/CMakeFiles/test_sflex_demultiplex.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 82%] Built target test_sflex_demultiplex /usr/bin/make -f extras/apps/seqan_flexbar/CMakeFiles/test_sflex_trimming.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/test_sflex_trimming.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar/CMakeFiles/test_sflex_trimming.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/seqan_flexbar/CMakeFiles/test_sflex_trimming.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/test_sflex_trimming.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/seqan_flexbar/CMakeFiles/test_sflex_trimming.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 83%] Built target test_sflex_trimming /usr/bin/make -f extras/apps/seqan_flexbar/CMakeFiles/test_sflex_adapter.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/test_sflex_adapter.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar/CMakeFiles/test_sflex_adapter.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/seqan_flexbar/CMakeFiles/test_sflex_adapter.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/test_sflex_adapter.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/seqan_flexbar/CMakeFiles/test_sflex_adapter.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 85%] Built target test_sflex_adapter /usr/bin/make -f extras/apps/seqan_flexbar/CMakeFiles/test_sflex_general_processing.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/test_sflex_general_processing.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar/CMakeFiles/test_sflex_general_processing.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/seqan_flexbar/CMakeFiles/test_sflex_general_processing.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/test_sflex_general_processing.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/seqan_flexbar/CMakeFiles/test_sflex_general_processing.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 87%] Built target test_sflex_general_processing /usr/bin/make -f extras/apps/seqan_flexbar/CMakeFiles/seqan_flexlib.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/seqan_flexlib.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar/CMakeFiles/seqan_flexlib.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/seqan_flexbar/CMakeFiles/seqan_flexlib.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/seqan_flexlib.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/seqan_flexbar/CMakeFiles/seqan_flexlib.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 88%] Built target seqan_flexlib /usr/bin/make -f extras/apps/seqan_flexbar/CMakeFiles/sflexQC.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/sflexQC.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar/CMakeFiles/sflexQC.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/seqan_flexbar/CMakeFiles/sflexQC.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/sflexQC.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/seqan_flexbar/CMakeFiles/sflexQC.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 90%] Built target sflexQC /usr/bin/make -f extras/apps/seqan_flexbar/CMakeFiles/sflexAR.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/sflexAR.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar/CMakeFiles/sflexAR.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/seqan_flexbar/CMakeFiles/sflexAR.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/sflexAR.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/seqan_flexbar/CMakeFiles/sflexAR.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 91%] Built target sflexAR /usr/bin/make -f extras/apps/seqan_flexbar/CMakeFiles/sflexDMulti.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/sflexDMulti.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar/CMakeFiles/sflexDMulti.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/seqan_flexbar/CMakeFiles/sflexDMulti.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/sflexDMulti.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/seqan_flexbar/CMakeFiles/sflexDMulti.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 93%] Built target sflexDMulti /usr/bin/make -f extras/apps/seqan_flexbar/CMakeFiles/sflexFilter.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/sflexFilter.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar/CMakeFiles/sflexFilter.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/seqan_flexbar/CMakeFiles/sflexFilter.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/sflexFilter.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/seqan_flexbar/CMakeFiles/sflexFilter.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 95%] Built target sflexFilter /usr/bin/make -f extras/apps/seqan_flexbar/CMakeFiles/seqan_flexbar.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/seqan_flexbar.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/seqan_flexbar/CMakeFiles/seqan_flexbar.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/seqan_flexbar/CMakeFiles/seqan_flexbar.dir/build.make extras/apps/seqan_flexbar/CMakeFiles/seqan_flexbar.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/seqan_flexbar/CMakeFiles/seqan_flexbar.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 96%] Built target seqan_flexbar /usr/bin/make -f extras/apps/sgip/CMakeFiles/sgip.dir/build.make extras/apps/sgip/CMakeFiles/sgip.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/sgip /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/sgip /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/sgip/CMakeFiles/sgip.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/sgip/CMakeFiles/sgip.dir/build.make extras/apps/sgip/CMakeFiles/sgip.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/sgip/CMakeFiles/sgip.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 98%] Built target sgip /usr/bin/make -f extras/apps/variant_comp/CMakeFiles/variant_comp.dir/build.make extras/apps/variant_comp/CMakeFiles/variant_comp.dir/depend make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/extras/apps/variant_comp /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/variant_comp /builddir/build/BUILD/seqan-1.4.2/build/Release/extras/apps/variant_comp/CMakeFiles/variant_comp.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/make -f extras/apps/variant_comp/CMakeFiles/variant_comp.dir/build.make extras/apps/variant_comp/CMakeFiles/variant_comp.dir/build make[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[2]: Nothing to be done for 'extras/apps/variant_comp/CMakeFiles/variant_comp.dir/build'. make[2]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [100%] Built target variant_comp make[1]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/cmake -E cmake_progress_start /builddir/build/BUILD/seqan-1.4.2/build/Release/CMakeFiles 0 /usr/bin/make -f CMakeFiles/Makefile2 preinstall make[1]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' make[1]: Nothing to be done for 'preinstall'. make[1]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "Release" -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/bin/dfi -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/dfi/LICENSE -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/dfi/README -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/dfi/example/fasta1.fa -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/dfi/example/fasta2.fa -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/bin/fiona -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/bin/compute_gain -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/fiona/LICENSE -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/fiona/README -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/fiona/example/reads.fa -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/bin/mason -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/mason/LICENSE -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/mason/README -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/mason/example/SRR018294.1.1M.error_dist -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/mason/example/SRR018311.1.1M.error_dist -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/mason/example/SRR026674.1.1M.error_dist -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/mason/example/SRR049254.1.1M.error_dist -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/bin/micro_razers -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/micro_razers/LICENSE -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/micro_razers/README -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/micro_razers/example/genome.fa -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/micro_razers/example/reads.fa -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/micro_razers/example/reads.fa.result -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/bin/pair_align -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/pair_align/LICENSE -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/pair_align/README -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/bin/rabema_prepare_sam -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/bin/rabema_build_gold_standard -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/bin/rabema_evaluate -- Up-to-date: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/bin/rabema_prepare_sam -- Up-to-date: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/bin/rabema_build_gold_standard -- Up-to-date: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/bin/rabema_evaluate -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/rabema/LICENSE -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/rabema/README -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/bin/razers -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/razers/LICENSE -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/razers/README -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/razers/example/genome.fa -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/razers/example/reads.fa -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/razers/example/reads2.fa -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/bin/razers2 -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/razers2/LICENSE -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/razers2/README -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/razers2/example/genome.fa -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/razers2/example/reads.fa -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/razers2/example/reads2.fa Change Dir: '/builddir/build/BUILD/seqan-1.4.2/build/Release' Run Build Command(s): /usr/bin/cmake -E env VERBOSE=1 /usr/bin/gmake -f Makefile sak_doc gmake[1]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/cmake -S/builddir/build/BUILD/seqan-1.4.2 -B/builddir/build/BUILD/seqan-1.4.2/build/Release --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/gmake -f CMakeFiles/Makefile2 sak_doc gmake[2]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/cmake -S/builddir/build/BUILD/seqan-1.4.2 -B/builddir/build/BUILD/seqan-1.4.2/build/Release --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /builddir/build/BUILD/seqan-1.4.2/build/Release/CMakeFiles 2 /usr/bin/gmake -f CMakeFiles/Makefile2 core/apps/sak/CMakeFiles/sak_doc.dir/all gmake[3]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/gmake -f core/CMakeFiles/seqan_core.dir/build.make core/CMakeFiles/seqan_core.dir/depend gmake[4]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core /builddir/build/BUILD/seqan-1.4.2/build/Release/core/CMakeFiles/seqan_core.dir/DependInfo.cmake "--color=" gmake[4]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/gmake -f core/CMakeFiles/seqan_core.dir/build.make core/CMakeFiles/seqan_core.dir/build gmake[4]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' gmake[4]: Nothing to be done for 'core/CMakeFiles/seqan_core.dir/build'. gmake[4]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 0%] Built target seqan_core /usr/bin/gmake -f core/apps/sak/CMakeFiles/sak.dir/build.make core/apps/sak/CMakeFiles/sak.dir/depend gmake[4]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/sak /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/sak /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/sak/CMakeFiles/sak.dir/DependInfo.cmake "--color=" gmake[4]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/gmake -f core/apps/sak/CMakeFiles/sak.dir/build.make core/apps/sak/CMakeFiles/sak.dir/build gmake[4]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' gmake[4]: Nothing to be done for 'core/apps/sak/CMakeFiles/sak.dir/build'. gmake[4]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [ 50%] Built target sak /usr/bin/gmake -f core/apps/sak/CMakeFiles/sak_doc.dir/build.make core/apps/sak/CMakeFiles/sak_doc.dir/depend gmake[4]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' cd /builddir/build/BUILD/seqan-1.4.2/build/Release && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/seqan-1.4.2 /builddir/build/BUILD/seqan-1.4.2/core/apps/sak /builddir/build/BUILD/seqan-1.4.2/build/Release /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/sak /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/sak/CMakeFiles/sak_doc.dir/DependInfo.cmake "--color=" gmake[4]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/gmake -f core/apps/sak/CMakeFiles/sak_doc.dir/build.make core/apps/sak/CMakeFiles/sak_doc.dir/build gmake[4]: Entering directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [100%] Generating README.sak.txt cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/sak && ../../../bin/sak --export-help=txt > README.sak.txt [100%] Generating sak.1 cd /builddir/build/BUILD/seqan-1.4.2/build/Release/core/apps/sak && ../../../bin/sak --export-help=man > sak.1 gmake[4]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' [100%] Built target sak_doc gmake[3]: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' /usr/bin/cmake -E cmake_progress_start 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Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/seqan_flexbar/README -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/bin/sgip -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/sgip/LICENSE -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/sgip/README -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/sgip/example/iso_m2D_m196.A01 -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/sgip/example/iso_r01_m200.A00 -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/sgip/example/iso_r01_m200.A01 -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/sgip/example/iso_r01_m200.B00 -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/sgip/example/iso_r01_m200.B01 -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/sgip/example/latin-4 -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/sgip/example/lattice-4 -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/sgip/example/sts-7 -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/bin/variant_comp -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/variant_comp/LICENSE -- Installing: /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/variant_comp/README make: Leaving directory '/builddir/build/BUILD/seqan-1.4.2/build/Release' + mkdir -p /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/include/seqan + cp -pr extras/include/seqan/LICENSE extras/include/seqan/align_extend extras/include/seqan/align_extend.h extras/include/seqan/align_profile extras/include/seqan/align_profile.h extras/include/seqan/align_split extras/include/seqan/align_split.h extras/include/seqan/alignment_free extras/include/seqan/alignment_free.h extras/include/seqan/bam_io extras/include/seqan/basic extras/include/seqan/basic_extras.h extras/include/seqan/bed_io extras/include/seqan/bed_io.h extras/include/seqan/find extras/include/seqan/find_extras.h extras/include/seqan/find_motif extras/include/seqan/find_motif.h extras/include/seqan/index extras/include/seqan/index_extras.h extras/include/seqan/journaled_set extras/include/seqan/journaled_set.h extras/include/seqan/math extras/include/seqan/math.h extras/include/seqan/misc extras/include/seqan/misc_extras.h extras/include/seqan/parse_lm extras/include/seqan/parse_lm.h extras/include/seqan/roi_io extras/include/seqan/roi_io.h extras/include/seqan/sequence extras/include/seqan/sequence_extras.h extras/include/seqan/statistics extras/include/seqan/statistics.h extras/include/seqan/translation extras/include/seqan/translation.h extras/include/seqan/vcf_io extras/include/seqan/vcf_io.h /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/include/seqan + cp -pr core/include/seqan/LICENSE core/include/seqan/align core/include/seqan/align.h core/include/seqan/arg_parse core/include/seqan/arg_parse.h core/include/seqan/bam_io core/include/seqan/bam_io.h core/include/seqan/basic core/include/seqan/basic.h core/include/seqan/consensus core/include/seqan/consensus.h core/include/seqan/file core/include/seqan/file.h core/include/seqan/find core/include/seqan/find.h core/include/seqan/gff_io core/include/seqan/gff_io.h core/include/seqan/graph_algorithms core/include/seqan/graph_algorithms.h core/include/seqan/graph_align core/include/seqan/graph_align.h core/include/seqan/graph_msa core/include/seqan/graph_msa.h core/include/seqan/graph_types core/include/seqan/graph_types.h core/include/seqan/index core/include/seqan/index.h core/include/seqan/map core/include/seqan/map.h core/include/seqan/misc core/include/seqan/modifier core/include/seqan/modifier.h core/include/seqan/parallel core/include/seqan/parallel.h core/include/seqan/pipe core/include/seqan/pipe.h core/include/seqan/platform core/include/seqan/platform.h core/include/seqan/random core/include/seqan/random.h core/include/seqan/score core/include/seqan/score.h core/include/seqan/seeds core/include/seqan/seeds.h core/include/seqan/seq_io core/include/seqan/seq_io.h core/include/seqan/sequence core/include/seqan/sequence.h core/include/seqan/sequence_journaled core/include/seqan/sequence_journaled.h core/include/seqan/store core/include/seqan/store.h core/include/seqan/stream core/include/seqan/stream.h core/include/seqan/system core/include/seqan/system.h core/include/seqan/version.h /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/include/seqan + mkdir -p seqandoc + cp -pr /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/alf /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/breakpoint_calculator /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/bs_tools /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/dfi /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/fiona /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/fx_tools /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/gustaf /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/insegt /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/mason /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/mason2 /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/micro_razers /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/ngs_roi /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/pair_align /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/param_chooser /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/rabema /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/razers /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/razers2 /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/razers3 /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/rep_sep /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/sak /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/sam2matrix /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/samcat /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/searchjoin /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/seqan_flexbar /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/seqan_tcoffee /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/seqcons /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/sgip /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/snp_store /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/splazers /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/stellar /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/tree_recon /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan/variant_comp seqandoc + rm -rf /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan + rm -f 'seqandoc/*.txt' + mv /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/bin/join /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/bin/searchjoin + find /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/bin -type f -name '*.h' -exec chmod 0755 '{}' ';' + /usr/bin/find-debuginfo -j2 --strict-build-id -m -i --build-id-seed 1.4.2-54.fc40 --unique-debug-suffix -1.4.2-54.fc40.x86_64 --unique-debug-src-base seqan-1.4.2-54.fc40.x86_64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 110000000 -S debugsourcefiles.list /builddir/build/BUILD/seqan-1.4.2 find-debuginfo: starting Extracting debug info from 43 files DWARF-compressing 43 files sepdebugcrcfix: Updated 43 CRC32s, 0 CRC32s did match. Creating .debug symlinks for symlinks to ELF files Copying sources found by 'debugedit -l' to /usr/src/debug/seqan-1.4.2-54.fc40.x86_64 24419 blocks find-debuginfo: done + /usr/lib/rpm/check-buildroot + /usr/lib/rpm/redhat/brp-ldconfig + /usr/lib/rpm/brp-compress + /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip + /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip + /usr/lib/rpm/check-rpaths + /usr/lib/rpm/redhat/brp-mangle-shebangs + /usr/lib/rpm/brp-remove-la-files + env /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0 -j2 + /usr/lib/rpm/redhat/brp-python-hardlink Processing files: seqan-1.4.2-54.fc40.x86_64 Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.7rzObi + umask 022 + cd /builddir/build/BUILD + cd seqan-1.4.2 + DOCDIR=/builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan + export LC_ALL= + LC_ALL= + export DOCDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan + cp -pr /builddir/build/BUILD/seqan-1.4.2/README.rst /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan + RPM_EC=0 ++ jobs -p + exit 0 Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.JXtO0J + umask 022 + cd /builddir/build/BUILD + cd seqan-1.4.2 + LICENSEDIR=/builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/licenses/seqan + export LC_ALL= + LC_ALL= + export LICENSEDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/licenses/seqan + cp -pr /builddir/build/BUILD/seqan-1.4.2/BSD.txt /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/licenses/seqan + cp -pr /builddir/build/BUILD/seqan-1.4.2/GPLv3+.txt /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/licenses/seqan + cp -pr /builddir/build/BUILD/seqan-1.4.2/LGPLv3+.txt /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/licenses/seqan + RPM_EC=0 ++ jobs -p + exit 0 Provides: bundled(gnulib) seqan = 1.4.2-54.fc40 seqan(x86-64) = 1.4.2-54.fc40 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: ld-linux-x86-64.so.2()(64bit) ld-linux-x86-64.so.2(GLIBC_2.3)(64bit) libbz2.so.1()(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.14)(64bit) libc.so.6(GLIBC_2.17)(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.25)(64bit) libc.so.6(GLIBC_2.3)(64bit) libc.so.6(GLIBC_2.3.2)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.32)(64bit) libc.so.6(GLIBC_2.33)(64bit) libc.so.6(GLIBC_2.34)(64bit) libc.so.6(GLIBC_2.35)(64bit) libc.so.6(GLIBC_2.36)(64bit) libc.so.6(GLIBC_2.38)(64bit) libc.so.6(GLIBC_2.4)(64bit) libemon.so.1.3.1()(64bit) libgomp.so.1()(64bit) libgomp.so.1(GOMP_1.0)(64bit) libgomp.so.1(GOMP_4.0)(64bit) libgomp.so.1(GOMP_4.5)(64bit) libgomp.so.1(OMP_1.0)(64bit) libgomp.so.1(OMP_2.0)(64bit) libgomp.so.1(OMP_3.0)(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.2.5)(64bit) libm.so.6(GLIBC_2.23)(64bit) libm.so.6(GLIBC_2.29)(64bit) libz.so.1()(64bit) libz.so.1(ZLIB_1.2.2.3)(64bit) libz.so.1(ZLIB_1.2.3.3)(64bit) rtld(GNU_HASH) Processing files: seqan-devel-1.4.2-54.fc40.x86_64 Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.7eghlI + umask 022 + cd /builddir/build/BUILD + cd seqan-1.4.2 + DOCDIR=/builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan-devel + export LC_ALL= + LC_ALL= + export DOCDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan-devel + cp -pr /builddir/build/BUILD/seqan-1.4.2/README.rst /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan-devel + RPM_EC=0 ++ jobs -p + exit 0 Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.WUlqvi + umask 022 + cd /builddir/build/BUILD + cd seqan-1.4.2 + LICENSEDIR=/builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/licenses/seqan-devel + export LC_ALL= + LC_ALL= + export LICENSEDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/licenses/seqan-devel + cp -pr /builddir/build/BUILD/seqan-1.4.2/BSD.txt /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/licenses/seqan-devel + cp -pr /builddir/build/BUILD/seqan-1.4.2/GPLv3+.txt /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/licenses/seqan-devel + cp -pr /builddir/build/BUILD/seqan-1.4.2/LGPLv3+.txt /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/licenses/seqan-devel + RPM_EC=0 ++ jobs -p + exit 0 Provides: seqan-devel = 1.4.2-54.fc40 seqan-devel(x86-64) = 1.4.2-54.fc40 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: seqan-doc-1.4.2-54.fc40.noarch Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.0841sH + umask 022 + cd /builddir/build/BUILD + cd seqan-1.4.2 + DOCDIR=/builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan-doc + export LC_ALL= + LC_ALL= + export DOCDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan-doc + cp -pr /builddir/build/BUILD/seqan-1.4.2/seqandoc /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/doc/seqan-doc + RPM_EC=0 ++ jobs -p + exit 0 Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.7lNSQO + umask 022 + cd /builddir/build/BUILD + cd seqan-1.4.2 + LICENSEDIR=/builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/licenses/seqan-doc + export LC_ALL= + LC_ALL= + export LICENSEDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/licenses/seqan-doc + cp -pr /builddir/build/BUILD/seqan-1.4.2/BSD.txt /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/licenses/seqan-doc + cp -pr /builddir/build/BUILD/seqan-1.4.2/GPLv3+.txt /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/licenses/seqan-doc + cp -pr /builddir/build/BUILD/seqan-1.4.2/LGPLv3+.txt /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64/usr/share/licenses/seqan-doc + RPM_EC=0 ++ jobs -p + exit 0 Provides: seqan-doc = 1.4.2-54.fc40 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: seqan-debugsource-1.4.2-54.fc40.x86_64 Provides: seqan-debugsource = 1.4.2-54.fc40 seqan-debugsource(x86-64) = 1.4.2-54.fc40 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: seqan-debuginfo-1.4.2-54.fc40.x86_64 Provides: debuginfo(build-id) = 03a67092df4b8b8336029941437b574ed5a626ee debuginfo(build-id) = 116434a7cd47d294d8a098f6d845b6f510d32f94 debuginfo(build-id) = 14ab7ff685a21b30e8abbc0fd98b8022fad4dee6 debuginfo(build-id) = 14c8497f49cd7c50e8c2df9887887466146792df debuginfo(build-id) = 1c2d181f7ed486662d5710925df3965812dc3668 debuginfo(build-id) = 1d62c6cb6209b9dddcc26ed67cefa36fccf22878 debuginfo(build-id) = 2926927abc98e03740999641daebb0af773be869 debuginfo(build-id) = 2a7f8f6804a197ec9c027ab4452fb5a00950b815 debuginfo(build-id) = 2e7c28108b60a8289e091e5d175b543dc0ba9edf debuginfo(build-id) = 2ea38cac0ffe475c50be67f60f16e4fe24a17769 debuginfo(build-id) = 2fde47a23ac282a2a8be8c613743491173ee248a debuginfo(build-id) = 35f0a8697e290636e2fe5689c64dc59e152908c6 debuginfo(build-id) = 3860ed513f8fe42f62e4fd76f3fdab5b65082bfe debuginfo(build-id) = 3fe220a3afdfc6bde1c0c3469b0ac2bde9a14f6c debuginfo(build-id) = 41ba960c87f06d3f277819559c21d8b4d8ab9f84 debuginfo(build-id) = 4435d2891793ec417a8f2b27cee849709421a0f8 debuginfo(build-id) = 4953260d2511aa2d26e9503ca866d92cf5c0c360 debuginfo(build-id) = 53f2c1164108e58592c94dbc2188adbb962731e0 debuginfo(build-id) = 596a50b36ba8bf49fdb5492323c52b56226f1cc2 debuginfo(build-id) = 68f2c8e17c292f063cb24ac26bf86c783a2dcf81 debuginfo(build-id) = 6947a1dd61358755bce80f25b2715dccf46e01ef debuginfo(build-id) = 73d741d0fcf8600596efe9944149b8c1180453f4 debuginfo(build-id) = 782f746f28e4715ef37fa0eff8033b9d5a20a90b debuginfo(build-id) = 80a648c5666adc04e8847637fec65d04d95448f7 debuginfo(build-id) = 833f7edcbb93daca5640e6524d3cfd067139041f debuginfo(build-id) = 86046e0f8c929ad2c607df5c676d774444700e6e debuginfo(build-id) = 9c1176d0fbafeb9f3a0bd3283e2e9cf58b4f0a7a debuginfo(build-id) = 9d0991ece8389cbdf67dc6fbad69c14825ca42fb debuginfo(build-id) = aad765d57b16e2e0d3823bec616e75207752ef3e debuginfo(build-id) = b3fe15f7a983841c0949bbb527d9d63bf6a33e1a debuginfo(build-id) = b926abe124c5dcb1587b3e0441db69a2b5efe038 debuginfo(build-id) = bf59894a68bd831bddbbd4c9464af8703ce73094 debuginfo(build-id) = c93d7ee7bec534a7664763f263269269f87ae4b9 debuginfo(build-id) = ce67b0eee25d88c1f0e536a7110eb1312922d7f0 debuginfo(build-id) = cee24da94c21da5bed0febf01c9c8d4492d3f53e debuginfo(build-id) = cfb2910926f7af5dace7517669e52ede3e3fd7a0 debuginfo(build-id) = d5921ed4118c4825476531ffbbf71fe0b25cfbca debuginfo(build-id) = d5cf3841920a52050974771e10e62562b07e8a3d debuginfo(build-id) = e601edce264ef3820b5b9cd96b9cb8a3783ad07f debuginfo(build-id) = eff3fd02f11caa7d529b4a3c476054ac616acb51 debuginfo(build-id) = f37f076d029fe040a1952edd45cfea1217c5bd6d debuginfo(build-id) = fcd9a1800e9495e1ad1dfd69573d456be62d57f4 debuginfo(build-id) = fdee8d336c6af24e7d406d3db9343dd72be53089 seqan-debuginfo = 1.4.2-54.fc40 seqan-debuginfo(x86-64) = 1.4.2-54.fc40 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: seqan-debugsource(x86-64) = 1.4.2-54.fc40 Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64 Wrote: /builddir/build/RPMS/seqan-1.4.2-54.fc40.x86_64.rpm Wrote: /builddir/build/RPMS/seqan-debugsource-1.4.2-54.fc40.x86_64.rpm Wrote: /builddir/build/RPMS/seqan-devel-1.4.2-54.fc40.x86_64.rpm Wrote: /builddir/build/RPMS/seqan-doc-1.4.2-54.fc40.noarch.rpm Wrote: /builddir/build/RPMS/seqan-debuginfo-1.4.2-54.fc40.x86_64.rpm Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.mcEjsX + umask 022 + cd /builddir/build/BUILD + cd seqan-1.4.2 + /usr/bin/rm -rf /builddir/build/BUILDROOT/seqan-1.4.2-54.fc40.x86_64 + RPM_EC=0 ++ jobs -p + exit 0 Executing(rmbuild): /bin/sh -e /var/tmp/rpm-tmp.qYJIoX + umask 022 + cd /builddir/build/BUILD + rm -rf /builddir/build/BUILD/seqan-1.4.2-SPECPARTS + rm -rf seqan-1.4.2 seqan-1.4.2.gemspec + RPM_EC=0 ++ jobs -p + exit 0 Finish: rpmbuild seqan-1.4.2-54.fc40.src.rpm Finish: build phase for seqan-1.4.2-54.fc40.src.rpm INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan INFO: /var/lib/mock/fedora-39-x86_64-1707147914.209182/root/var/log/dnf.rpm.log /var/lib/mock/fedora-39-x86_64-1707147914.209182/root/var/log/dnf.librepo.log /var/lib/mock/fedora-39-x86_64-1707147914.209182/root/var/log/dnf.log INFO: Done(/var/lib/copr-rpmbuild/results/seqan-1.4.2-54.fc40.src.rpm) Config(child) 44 minutes 47 seconds INFO: Results and/or logs in: /var/lib/copr-rpmbuild/results INFO: Cleaning up build root ('cleanup_on_success=True') Start: clean chroot INFO: unmounting tmpfs. Finish: clean chroot Finish: run Running RPMResults tool Package info: { "packages": [ { "name": "seqan-doc", "epoch": null, "version": "1.4.2", "release": "54.fc40", "arch": "noarch" }, { "name": "seqan-debuginfo", "epoch": null, "version": "1.4.2", "release": "54.fc40", "arch": "x86_64" }, { "name": "seqan-debugsource", "epoch": null, "version": "1.4.2", "release": "54.fc40", "arch": "x86_64" }, { "name": "seqan-devel", "epoch": null, "version": "1.4.2", "release": "54.fc40", "arch": "x86_64" }, { "name": "seqan", "epoch": null, "version": "1.4.2", "release": "54.fc40", "arch": "src" }, { "name": "seqan", "epoch": null, "version": "1.4.2", "release": "54.fc40", "arch": "x86_64" } ] } RPMResults finished